assays.tsv

ontology ID	label	editor preferred term	has curation status	alternative term	definition	definition source	example of usage	term editor	editor note	curator note	ontology term requester	term tracker item	logical type	logical note	parent class	material processing technique	detection technique	evaluant	measurand	analyte	device	reagent	molecular label	input	output	target entity	target context	objective	associated axioms
ID	A rdfs:label	A editor preferred term	AI has curation status	A alternative term SPLIT=|	AL definition@en SPLIT=|	A definition source SPLIT=|	A example of usage SPLIT=|	A term editor SPLIT=|	A editor note SPLIT=|	A curator note SPLIT=|	A ontology term requester	A term tracker item	CLASS_TYPE		C %	C 'has part' some % SPLIT=|	C 'has part' some ( % and 'detection technique') SPLIT=|	C (has_specified_input some (% and 'has role' some 'evaluant role')) and (realizes some ('evaluant role' and ('role of' some %))) SPLIT=|	C (has_specified_input some %) and (realizes some ('measurand role' and ('inheres in' some %)))	C (has_specified_input some %) and (realizes some ('analyte role' and ('inheres in' some %)))	C (has_specified_input some %) and (realizes some (function and ('inheres in' some %))) SPLIT=|	C (has_specified_input some %) and (realizes some ('reagent role' and ('inheres in' some %)))	C (has_specified_input some %) and (realizes some ('molecular label role' and ('inheres in' some %)))	C has_specified_input some %	C has_specified_output some %	C has_specified_output some ('is about' some %)	C has_specified_output some ('is about' some ( 'has assay target context' some %))	C achieves_planned_objective some %	C %
CHMO:0000087	fluorescence microscopy assay			fluorescence imaging|fluorescence microscopic imaging|FM	Any type of light microscopy assay where the specimen can be made to fluoresce (emit energy as visible light) by illuminating it with light of specific wavelengths. These specimens are called fluorophores.	CHMO							subclass		light microscopy assay									('material entity' and ('bearer of' some fluorescence))					
CHMO:0000089	confocal fluorescence microscopy assay			CLSM|confocal fluorescence imaging|confocal laser scanning fluorescence microscopy|confocal laser scanning microscopy|confocal-laser scanning microscopy|fluorescence confocal microscopy|fluorescence confocal scanning laser microscopy|LSCM|scanning confocal fluorescence microscopy	Microscopy where the specimen can be made to fluoresce (emit energy as visible light) by scanning a gas (Ar or Kr) laser spot of specific wavelength over its surface and using a spatial pinhole to eliminate out-of-focus fluorescence.	CHMO							subclass		microscopy assay														
CHMO:0000102	light microscopy assay			light microscopy|OM|optical microscopy	Microscopy where the specimen is illuminated with visible light and a system of lenses is used to produce an image.	CHMO							subclass		microscopy assay														
CHMO:0000701	liquid chromatography-tandem mass spectrometry			LC-MSMS|LC-MS-MS|LC-MS/MS|liquid chromatography tandem mass spectroscopy|LC-MS2|liquid chromatography-tandem mass spectroscopy|LCMSMS|liquid chromatography tandem mass spectrometry|LC/MS/MS	A method where a sample mixture is first separated by liquid chromatography before being ionised and characterised by mass-to-charge ratio and relative abundance using two mass spectrometers in series.	CHMO							subclass		tandem mass spectrometry assay	liquid chromatography													
OBI:0000117	Bernoulli trial		pending final vetting		An assay where the output data is a datum with one of two values denoting success and failure.	OBI branch derived		PlanAndPlannedProcess Branch					subclass		assay														
OBI:0000182	NMR 3D molecular structure determination assay				A 3D molecular structure determination assay that uses magnetic properties of atomic nuclei to determine the 3D structure and dynamics of molecules in the input sample.	IEDB	Determining the binding of epitope-specific nanobody cAb-HuL5 to wild type human lysozyme by chemical shift perturbations in NMR spectra (Erwin De Genst, J Phys Chem B 2013).	PlanAndPlannedProcess Branch|IEDB					equivalent		3D molecular structure determination assay						NMR instrument				3D structural organization datum				
OBI:0000185	imaging assay		pending final vetting		An assay that produces a picture of an entity.	OBI branch derived		PlanAndPlannedProcess Branch					subclass		assay										image				
OBI:0000201	radioactivity detection				An assay that measures the amount of radiation in the radioactive spectrum (alpha, beta or gamma rays) emitted from an input material.	IEDB	Placing the evaluant input material close to a scintillation counter which emits light upon being hit with alpha/beta/gamma radiation and counting the frequency of light blasts to determine the radioactivity of the input material.	PlanAndPlannedProcess Branch|IEDB					equivalent		assay									('material entity' and ('bearer of' some radioactive))		('material entity' and ('bearer of' some radioactive))			
OBI:0000288	protein-protein interaction detection assay		metadata incomplete		An assay that determines interactions between proteins, such as protein-protein binding.								subclass		assay														
OBI:0000291	transcription factor binding site assay		metadata complete	TF binding	An assay tthat determines DNA regions specifically recognized by proteins that function as transcription factors	OBI	Transcription factor binding site identification in yeast: a comparison of high-density oligonucleotide and PCR-based microarray platforms.	Philippe Rocca-Serra				https://sourceforge.net/p/obi/obi-terms/767/	subclass		binding assay										information content entity	TF_binding_site			
OBI:0000366	metabolite profiling assay		metadata complete	metabolite assay|metabolomic assay	An assay that detects and identifies chemical entities resulting from biochemical and cellular metabolism	OBI	Metabolite profiling of human colon carcinoma - deregulation of TCA cycle and amino acid turnover. Mol Cancer. 2008 Sep 18;7(1):72. PMID: 18799019	Philippe Rocca-Serra					subclass		assay									specimen					
OBI:0000418	measuring glucose concentration in blood serum assay		metadata incomplete		An assay that determines the concentration of glucose molecules in a blood serum sample	OBI	Measuring glucose concentration in blood from a mouse. See Figure 2 of the 2016 OBI paper, PMID: 27128319.	Bjoern Peters					subclass		analyte assay			blood serum specimen		glucose									
OBI:0000424	transcription profiling assay		metadata complete	gene expression profiling|transcription profiling	An assay that determines gene expression and transcription activity using ribonucleic acids collected from a material entity.	OBI	Whole genome transcription profiling of Anaplasma phagocytophilum in human and tick host cells by tiling array analysis. BMC Genomics. 2008 Jul 31;9:364. PMID: 18671858	Philippe Rocca-Serra	This term should encompass transcription and post-transcription, but before translation into protein. So 'gene expression' itself is too broad, and we use 'transcription profiling identification objective' to constrain the scope of this term.				equivalent		assay			RNA extract		ribonucleic acid				(specimen and ('has part' some 'ribonucleic acid'))	measurement datum	gene expression		transcription profiling identification objective	
OBI:0000433	DNA sequence feature detection assay		metadata incomplete		An assay with the objective to determine a sequence feature of DNA	OBI	genotyping using an Affymetrix chip	Philippe Rocca-Serra|Bjoern Peters					subclass		assay			DNA extract										sequence feature identification objective	
OBI:0000435	genotyping assay		metadata complete	genotype profiling|SNP analysis	An assay which generates data about a genotype from a specimen of genomic DNA. A variety of techniques and instruments can be used to produce information about sequence variation at particular genomic positions.	OBI Biomaterial	High-throughput genotyping of oncogenic human papilloma viruses with MALDI-TOF mass spectrometry. Clin Chem. 2008 Jan;54(1):86-92. Epub 2007 Nov 2.PMID: 17981923	Philippe Rocca-Serra					subclass		analyte assay			DNA extract						(specimen and ('has part' some 'deoxyribonucleic acid'))	genotype information			sequence feature identification objective	
OBI:0000438	DNA sequence variation detection assay		ready for release		An assay that measures changes (expansion, amplification, deletion, mutation) in the sequence of a DNA molecule.	OBI Biomaterial	Capturing genomic signatures of DNA sequence variation using a standard anonymous microarray platform. Nucleic Acids Res. 2006;34(18):e121. PMID: 17000641	Philippe Rocca-Serra					subclass		assay									DNA extract	measurement datum			sequence feature identification objective	
OBI:0000443	analyte assay		ready for release		An assay with the objective to capture information about the presence, concentration, or amount of an analyte in an evaluant.	Bjoern Peters|Helen Parkinson|Philippe Rocca-Serra|Alan Ruttenberg|OBI Planned process branch	example of usage: In lab test for blood glucose, the test is the assay, the blood bears evaluant_role and glucose bears the analyte role. The evaluant is considered an input to the assay and the information entity that records the measurement of glucose concentration the output	Bjoern Peters|Helen Parkinson|Philippe Rocca-Serra|Alan Ruttenberg					subclass		assay										measurement datum			analyte measurement objective	
OBI:0000445	mass measurement assay		metadata complete		An assay that determines the mass of an evaluant	OBI	The patients was weighed and mass was determined to be 47 kilograms	Helen Parkinson					subclass		assay			material entity							mass measurement datum				
OBI:0000447	intracellular electrophysiology recording assay		metadata incomplete		An electrophysiology assay where the recording location of the electrode is intracellular.	Frank Gibson		Frank Gibson					subclass		electrophysiology assay										mass measurement datum	monoatomic ion channel activity			
OBI:0000454	extracellular electrophysiology recording assay		metadata complete		An electrophysiology assay where the recording location of the electrode is extracellular.	Frank Gibson	The recording of a spike train in the caudate nucleus of a monkey where the electrodes are extra cellular, i.e. not in the neuron	Frank Gibson|Helen Parkinson					subclass		electrophysiology assay										mass measurement datum	monoatomic ion channel activity			
OBI:0000470	mass spectrometry assay				An assay that identifies the amount and type of material entities present in a sample by fragmenting the sample and measuring the mass-to-charge ratio of the resulting particles.	Philippe Rocca-Serra	Identification of a proteins cut out from a 2D gel by cleaving it into peptides using trypsin digestion using electrospray ionizatino to ensure the peptides are charged, and accelerating them with an electro magnetic field in which the flight path is determined by the mass / charge ratio of the peptides. Comparing the mass/charge ratio of peptides in the proteins with databases of protein sequences allows to identify which protein gave rise to the peptides.	Philippe Rocca-Serra					equivalent		assay						mass spectrometer								
OBI:0000520	clinical chemistry assay		metadata complete	detection of analyte in blood sample|chemical pathology	An analyte assay which uses analytical methods to produce measurements and data on the concentration of chemical parameters (analytes) present in a bodily fluid collected from an organism.	url:https://en.wikipedia.org/wiki/Clinical_chemistry	Influence of hydroxyethyl starch (6% HES 130/0.4) administration on hematology and clinical chemistry parameters.	Philippe Rocca-Serra					subclass		analyte assay			bodily fluid specimen		scattered molecular aggregate									
OBI:0000537	copy number variation profiling assay		metadata complete	CNV analysis	An assay that determines lost or amplified genomic regions of DNA by comparing genomic DNA originating from tissues from the same or different individuals using specific techniques such as CGH, array CGH, SNP genotyping		Profiling of copy number variations (CNVs) in healthy individuals from three ethnic groups using a human genome 32 K BAC-clone-based array. PMID:18058796	Philippe Rocca-Serra					subclass		assay										measurement datum	genetic characteristics information			
OBI:0000615	protein expression profiling assay		metadata complete	proteomic analysis	An assay that determines protein expression and translation activity using protein extracts collected from a material entity.	OBI branch derived	Protein Expression Profiling During Chick Retinal Maturation: A Proteomics-based approach. PMID:19077203	Phlippe Rocca-Serra					subclass		assay			(specimen and ('has part' some protein))											
OBI:0000623	NMR spectroscopy assay		metadata incomplete	Nuclear magnetic resonance spectroscopy	An assay that exploits the magnetic properties of certain nuclei (those with a spin) to resonate when placed in particular magnetic field conditions. Instruments recording NMR spectrum and sets of analysis can be used to deduce identity of chemical as well as composition of complex chemical mixtures.	url:https://en.wikipedia.org/wiki/Nuclear_magnetic_resonance_spectroscopy	Metabolic profiling studies on the toxicological effects of realgar in rats by (1)H NMR spectroscopy. Wei L, Liao P, Wu H, Li X, Pei F, Li W, Wu Y. Toxicol Appl Pharmacol. 2008 Nov 25. PMID: 19073202	Philippe Rocca-Serra					subclass		assay														
OBI:0000626	DNA sequencing assay		metadata incomplete	nucleotide sequencing	A sequencing assay which determines information on the sequence of a DNA molecule.	url:https://en.wikipedia.org/wiki/DNA_sequencing	Illumina (Solexa) sequencing is an example of DNA sequencing	Philippe Rocca-Serra					equivalent		sequencing assay			DNA extract			DNA sequencer				DNA sequence data	primary structure of DNA macromolecule			
OBI:0000630	hematology assay		metadata incomplete	blood analysis|haematology	An assay that studies blood and blood producing organs using a variety of techniques and instruments	OBI branch derived	Co-associations between insulin sensitivity and measures of liver function, subclinical inflammation, and hematology._PMID:18702943	Philippe Rocca-Serra					subclass		assay										('information content entity' and ('is about' some hemopoiesis))				
OBI:0000634	DNA methylation profiling assay		ready for release	DNA methylation profiling	An assay that measures the state of methylation of DNA molecules using genomic DNA collected from a material entity using a range of techniques and instrument such as DNA sequencers and often relying on treatment with bisulfites to ensure cytosine conversion.	OBI branch derived	Genome-wide, high-resolution DNA methylation profiling using bisulfite-mediated cytosine conversion. Reinders J, Delucinge Vivier C, Theiler G, Chollet D, Descombes P, Paszkowski J._PMID:18218979	Philippe Rocca-Serra					subclass		epigenetic modification assay			DNA extract		('deoxyribonucleotide' and ('has part' some 'methyl group'))				(specimen and ('has part' some 'deoxyribonucleic acid'))	data item			epigenetic modification identification objective	
OBI:0000661	enzyme-linked immunosorbent assay			ELISA	An analyte assay where binding of an enzyme linked antibody to a material entity that is immobilized on solid support is detected utilizing a chemiluminescent reaction. Depending on the setup, the enzyme-linked antibody could be binding directly to the analyte, or it serves as a secondary antibody detecting binding of the primary antibody to the analyte.	IEDB	1) Detection of IL-2 (analyte) in a cell supernatant (evaluant), using plate bound anti IL-2 antibodies, and a reporter enzyme-linked reporter antibody. 2) Measurement of IgG antibody (analyte) titer in a serum sample (evaluant) using plate bound antigen and a reporter anti-IgG antibody.	IEDB					subclass	logical definition does not capture details of processing	analyte assay							immunoglobulin complex, circulating							
OBI:0000664	BrdU incorporation assay				A cell proliferation assay in which cells are cultured in the presence of BrdU which is incorporated into newly synthesized DNA of replicating cells (during the S phase of the cell cycle), substituting for thymidine during DNA replication, which can be quantified by BrdU specific antibodies.	IEDB	The measurement of T cell proliferation as a response to a viral peptide by culturing T cells stimulated with APCs and peptide in the presence of BrdU.	IEDB					subclass	logical definition does not capture how exactly BRDU is utilized	cell proliferation assay								""5-bromo-2'-deoxyuridine""						
OBI:0000669	tritiated thymidine incorporation assay				A cell proliferation assay in which cells are cultured in the presence of tritiated thymidine which is incorporated into newly synthesized DNA of replicating cells (during the S phase of the cell cycle). The radioactivity of tritiated thymidine in a cell is a proxy for cells that were actively replicating.	IEDB	The measurement of T cell proliferation as a response to a viral peptide by culturing T cells stimulated with APCs and peptide in the presence of tritiated thymidine, and using a scintillation counter to detect the radioactivity.	IEDB					subclass	logical definition does not capture how exactly thymidine is utilized	cell proliferation assay		radioactivity detection						tritiated thymidine						
OBI:0000693	MeDIP-seq assay		metadata complete	Methylated DNA immunoprecipitation sequencing assay	A DNA methylation profiling assay that identifies methylated sites in genomic DNA and determines the methylation pattern that affect gene transcription using immunoprecipitation of methylated genomic DNA, creation of a library of corresponding DNA fragments (either single or paired-end fragments) and subsequent sequencing using parallelized sequencing methods.	url:https://en.wikipedia.org/wiki/Methylated_DNA_immunoprecipitation	PMID: 18612301. A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis. Down TA, Rakyan VK, Turner DJ, Flicek P, Li H, Kulesha E, Gr�_f S, Johnson N, Herrero J, Tomazou EM, Thorne NP, B�_ckdahl L, Herberth M, Howe KL, Jackson DK, Miretti MM, Marioni JC, Birney E, Hubbard TJ, Durbin R, Tavar�� S, Beck S. Nat Biotechnol. 2008 Jul;26(7):779-85.	Philippe Rocca-Serra					subclass	infer chip & sequecing assays	DNA methylation profiling assay	chromatin immunoprecipitation|library preparation	sequencing assay	DNA extract|('has part' some chromatin)		('deoxyribonucleotide' and ('has part' some 'methyl group'))	DNA sequencer			DNA extract	sequence data			epigenetic modification identification objective	
OBI:0000695	chain termination sequencing assay		metadata complete	Sanger sequencing|dye terminator sequencing	A DNA sequencing assay which rely on the use of dideoxynucleotides used in 4 distinct sequencing reaction on the same DNA sample. The dideoxynucleotides, once incorporated in the complementary DNA strand being synthesized by the DNA polymerase prevent any further chain elongation. The newly generated sequences are resolved on a polyacrylamide gel using electrophoresis and labels (either fluorochrome or radioactivity) are used to determine the nucleotide present at a given position	url:https://en.wikipedia.org/wiki/Sanger_sequencing	PMID: 271968. DNA sequencing with chain-terminating inhibitors.	Philippe Rocca-Serra					subclass		DNA sequencing by synthesis assay						('ABI 377 automated sequencer' or 'Li-Cor 4300 DNA Analysis System')			PCR product					
OBI:0000697	Helicos sequencing assay		metadata complete	true single molecule sequencing	A DNA sequencing by synthesis assay that identifiies the sequnece of billions of DNA molecules immobilized to a surface using DNA polymerase and fluorescently labeled nucleotides added one at a time. The sequencing process does not require an amplification step and is typically able to produce reads of 25 base pair length.	url:https://en.wikipedia.org/wiki/Helicos_single_molecule_fluorescent_sequencing	PMID: 18388294. Single-molecule DNA sequencing of a viral genome.	Philippe Rocca-Serra					subclass		DNA sequencing by synthesis assay						HeliScope Single Molecule Sequencer								
OBI:0000699	survival assessment assay		metadata incomplete		An assay that measures the occurrence of death events in one or more organisms over time								subclass		assay									organism	survival rate	organism			
OBI:0000705	Edman degradation				A sequencing assay in which the amino acid sequence of input peptides or proteins is determined by iteratively cleaving of the amino-terminal (N-terminal) residue without disrupting the peptide bonds and identifying it by e.g. chromatography or electropheresis.	IEDB	Determination of the amino acid sequence of a peptide eluted from HLA-DRB1*04:01 to be VYPEVTVYPAKT.	IEDB					subclass	logical definition does not capture iterative cleaving	sequencing assay								material entity		information content entity	polypeptide			
OBI:0000706	SOLiD sequencing assay		metadata complete		A DNA sequencing by ligation assay that identifies sequence information using primers to hybridize to the P1 adapter sequence within the library template, fluorescently labeled di-base probes to compete for ligation to the sequencing primer, multiple cycles of ligation, detection and cleavage to determine the eventual read length, following a series of ligation cycles, the extension product is removed and the template is reset with a primer complementary to the n-1 position for a second round of ligation cycles.	url:https://en.wikipedia.org/wiki/ABI_Solid_Sequencing	PMID: 19119315. High-resolution analysis of the 5'-end transcriptome using a next generation DNA sequencer. Hashimoto S, Qu W, Ahsan B, Ogoshi K, Sasaki A, Nakatani Y, Lee Y, Ogawa M, Ametani A, Suzuki Y, Sugano S, Lee CC, Nutter RC, Morishita S, Matsushima K. PLoS One. 2009;4(1):e4108.	Philippe Rocca-Serra					subclass		DNA sequencing by ligation assay						AB SOLiD System			('DNA ligase' or 'paired-end library' or 'single fragment library')					
OBI:0000716	ChIP-seq assay		ready for release	chromatin immunoprecipitation sequencing assay	An assay in which chromatin is immunoprecipitated and subsequently analyzed using a DNA sequencing step to identify which parts of DNA are part of the isolated chromatin	url:https://en.wikipedia.org/wiki/ChIP-sequencing	PMID: 19275939	Philippe Rocca-Serra|Bjoern Peters					equivalent		ChIP assay		DNA sequencing assay				DNA sequencer								
OBI:0000721	glucose tolerance test		ready for release		An assay that measures glucose clearance from blood over time by repeated glucose measurement in blood serum or plasma after the administration of a glucose bolus in-vivo. This assay can be used to evaluate the severity of insulin resistance or the efficiency of glucose clearance.	NuGO OBI plan branch	PMID: 19527607	Philippe Rocca-Serra					subclass		assay	administering substance in vivo	measuring glucose concentration in blood serum assay	blood serum specimen								Insulin resistance		biological feature identification objective	
OBI:0000723	DNA sequencing by ligation assay		metadata incomplete		A DNA sequencing assay that performs chain extension during the sequencing reaction step using DNA ligase	url:https://en.wikipedia.org/wiki/Sequencing_by_ligation	ABI Solid Sequencing uses the ligation-based DNA sequencing technology (https://en.wikipedia.org/wiki/ABI_Solid_Sequencing).	Philippe Rocca-Serra					subclass		DNA sequencing assay									DNA ligase					
OBI:0000724	Solexa sequencing assay		metadata complete	reversible terminator sequencing	A DNA sequencing by synthesis assay that identifies sequence information using DNA polymerase and reversible terminator, requiring immobilization of genomic DNA fragments onto a surface and a specific clonal amplification step known as bridge PCR. Reliance on a reversible terminator allows cycles of DNA chain extension by DNA polymerase and imaging without the need of electrophoretic separation of newly synthesized DNA fragment as with Sanger sequencing.	Solexa web site (SS_DNAsequencing.pdf document available on july 2009)	PMID: 18987734	Philippe Rocca-Serra					subclass		DNA sequencing by synthesis assay						Illumina Genome Analyzer II			('paired-end library' or 'single fragment library')					
OBI:0000730	pyrosequencing assay		metadata complete		A DNA sequencing by synthesis assay which sequences a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step. The template DNA is immobilized, and solutions of A, C, G, and T nucleotides are added and removed after the reaction, sequentially. Light is produced only when the nucleotide solution complements the first unpaired base of the template. The sequence of solutions which produce chemiluminescent signals allows the determination of the sequence of the template. ssDNA template is hybridized to a sequencing primer and incubated with the enzymes DNA polymerase, ATP sulfurylase, luciferase and apyrase, and with the substrates adenosine 5-prime phosphosulfate (APS) and luciferin.	url:http://en.wikipedia.org/wiki/Pyrosequencing	Pyrosequencing sheds light on DNA sequencing. PMID:1115661	Philippe Rocca-Serra					subclass		DNA sequencing by synthesis assay						('454 Genome Sequence 20' or '454 Genome Sequencer FLX')								
OBI:0000734	DNA sequencing by synthesis assay		metadata incomplete		A DNA sequencing assay that relies on DNA polymerase activity to perform chain extension during the sequencing reaction step.	url:https://www.illumina.com/technology/next-generation-sequencing/sequencing-technology.html	Roche-454 pyrosequencing and Illumina (Solexa) sequencing use synthesis-based method for DNA sequencing	Philippe Rocca-Serra					subclass		DNA sequencing assay									DNA polymerase complex					
OBI:0000743	immune response assay		metadata incomplete		An assay that determines information about an immune response	IEDB	Measuring if a Hepacivirus C (HCV) infected patient has an antibody response to HCV core protein by ELISA.	Bjoern Peters|Randi Vita					subclass		assay										measurement datum	immune response			
OBI:0000748	bisulfite sequencing assay		metadata complete		A DNA methylation profiling assay which determines the methylation status of genomic DNA using DNA sequencing techniques preceded by a bisulfite based chemical modification of genomic DNA at CpG island location.	url:https://en.wikipedia.org/wiki/Bisulfite_sequencing	PMID: 19581485. High definition profiling of mammalian DNA methylation by array capture and single molecule bisulfite sequencing. Hodges E, Smith A, Kendall J, Xuan Z, Ravi K, Rooks M, Zhang M, Ye K, Battacharjee A, Brizuela L, McCombie WR, Wigler M, Hannon GJ, Hicks J.	Philippe Rocca-Serra|Sagar Jain					subclass	DNA meth profiling is a epigenetic mod assay, does not need inference	DNA methylation profiling assay		DNA sequencing assay	DNA extract		('deoxyribonucleotide' and ('has part' some 'methyl group'))	DNA sequencer			DNA extract	('measurement datum' and 'DNA sequence data')			epigenetic modification identification objective	
OBI:0000787	human antithrombin-III in blood assay		ready for release	AT-III assay	An assay that measures the amount of antithrombin III in blood.	url:http://www.muschealth.com/lab/content.aspx?id=150006@2009/08/06	PMID:19696660#The antithrombin-III (AT-III) was determined using a Berichrom(r) Antithrombin-III (A) kit.	Alan Ruttenberg					subclass		analyte assay					('scattered molecular aggregate' and ('has grain' some antithrombin-III))					scalar measurement datum	blood coagulation			
OBI:0000802	prothrombin time assay		metadata complete		An assay that measures the prothrombin ratio, which is the prothrombin time for a patient, divided by the result for control plasma. Most commonly the test is preformed using blood plasma. Blood is drawn into a test tube containing liquid citrate, which acts as an anticoagulant. An excess of calcium is added to enable the blood to clot again.Tissue factor (also known as factor III or thromboplastin) is added, and the time the sample takes to clot is measured optically as the prothrombin time, which is compared to a control sample.	url:http://en.wikipedia.org/wiki/Prothrombin_time@2009/10/06	PMID:19696660#The prothrombin time (PT) was quantitatively determined using RecombiPlasTin (Instrumentation Laboratory Company, Lexington, Massachusetts, USA).	Alan Ruttenberg					subclass		assay										scalar measurement datum	blood coagulation			
OBI:0000805	antithrombin-III berichrome assay		metadata complete	AT-III assay	An antithrombin-III (AT-III) assay in which exogenous bovine thrombin and heparin are added to test plasma to form a thrombin-heparin-AT complex. The residual thrombin not bound then hydrolyzes the p-nitroalanine substrate to produce a yellow color, which is read at 405 nm. The intensity of color produced is inversely proportional to the AT present. A calibration is done with standard human plasma reagent and results for a given specimen are reported as a percentage relative to the standard	url:http://www.clinchem.org/cgi/content/full/43/9/1783@2009/08/06							subclass		human antithrombin-III in blood assay														(has_specified_output some 'scalar measurement datum') and ('has participant' some 'Berichrom(r) Antithrombin III (A) Kit') and (has_specified_output exactly 1 Thing)
OBI:0000808	spectrolyse heparin antifactor-Xa assay		metadata complete		An assay that quantitatively measures heparin in human plasma using Factor Xa and Antithrombin III in excess, where the rate of Factor Xa inhibition is directly proportional to the heparin concentration. The residual Factor Xa activity, measured with a Factor Xa-specific chromogenic substrate, is inversely proportional to the heparin concentration.	url:http://www.kordia.nl/en/product/hemostasis/specialty_kits__reagens/598/spectrolyse_heparin_anti_xa@2009/08/06	PMID:19696660#Antifactor-Xa (anti-Xa) was determined using spectrolyse heparin (Xa) (Trinity Biotech plc, Bray, County Wicklow, Ireland).	Alan Ruttenberg					subclass		assay										scalar measurement datum	blood coagulation			
OBI:0000812	measuring neural activity in the caudate nucleus assay		metadata complete		An assay that measures neural activity in the caudate nucleus	Jessica Turner, NIF|Dirk Derom, OBI	An SU micro-electrode was used to measure neural activity in the form of spike trains in the caudate nucleus of monkeys in response to a flashing light stimulus	Helen Parkinson					subclass		extracellular electrophysiology recording assay														
OBI:0000820	activated partial thromboplastin time assay		metadata complete	aPTT assay	An assay that evaluates blood coagulation by measuring the time required for the appearance of fibrin strands following the mixing blood or plasma with phospholipid platelet substitute (e.g., crude cephalins, soybean phosphatides). It is a test of the intrinsic pathway (factors VIII, IX, XI, and XII) and the common pathway (fibrinogen, prothrombin, factors V and X) of blood coaguation . It is used as a screening test and to monitor heparin therapy.	url:http://www.ebi.ac.uk/ols/ontologies/efo/terms?short_form=EFO_0004310	The activated partial thromboplastin time (aPTT) was determined using Dade Actin FSL activated PTT reagent (PMID:19696660)	Alan Ruttenberg|OBI call	There is also the 'partial thromboplastin assay', which some people use synonymously to aPPT, but historically was done slightly differently (without adding a coagulant).				subclass		assay			('blood specimen' or 'blood plasma specimen')							time measurement datum	blood coagulation			
OBI:0000823	thrombin time assay		metadata complete		An assay that measures the time between the addition of the thrombin and the clot formation in plasma.	url:http://en.wikipedia.org/wiki/Thrombin_time@2009/10/06	PMID:19696660#The thrombin time was determined using thromboclotin assay kit.	Alan Ruttenberg					subclass		assay										scalar measurement datum	blood coagulation			
OBI:0000854	western blot assay				An analyte assay that detects specific peptides in an input material by separating it using gel electrophoresis, transfering the separated molecules to a membrane, and staining them with_ antibodies specific to the analyte molecules.	Philippe Rocca-Serra|IEDB	Running a cell lysate on an acrylamide gel in a western blot aparatus to separate the constituent proteins, followed by transfer of the proteins from the gel to a nitrocellulose membrane. Staining this membrane with specific antibodies to detect the presence of specific proteins of interest.	Philippe Rocca-Serra|IEDB					subclass	logical definition does not capture details of processing	immunoblot assay					peptide									
OBI:0000860	northern blot assay		metadata incomplete	northern blot	An assay that determines the presence of gene transcripts by hybridizing labeled RNA or DNA probes against messenger RNAs isolated from tissue or cell cultures, resolved on denaturing gel, transfered by a blotting procedure to a solid support. Detection of hybridization signals is carried out by immunofluorescence or radioactivity measurements using photographic films or digital imaging devices such as Phosphor Imager.		The level of actin mRNA levels in normal and diseased tiisue was measured using a northern blot assay.	Philippe Rocca-Serra|Richard Scheuermann					subclass		analyte assay					ribonucleic acid					measurement datum				
OBI:0000865	96-well neutralization assay		metadata complete	microneutralization assay	A serum neutralization of viral infectivity assay which is performed in a 96-well plate.			Bjoern Peters|Melanie Courtot					subclass		serum neutralization of viral infectivity assay						multi-well plate								
OBI:0000870	single-nucleotide-resolution nucleic acid structure mapping assay		metadata complete		An assay that provides information about the secondary structure of nucleic acids using chemical or enzymatic probing to establish the extent of base-pairing or solvent accessiblity.	RNAO		Philippe Rocca-Serra					equivalent		assay											secondary structure of sequence macromolecule			
OBI:0000871	viral hemagglutination assay		metadata complete	viral haemagglutinin assay|HI|HA	An assay that quantifies viruses by their hemagglutination activity.	url:http://en.wikipedia.org/wiki/Hemagglutination_assay	Determining the viral titer of a virus infected human by measuring the presence of hemagglutination when dilutions of serum samples are added to a known quantity of red blood cells.	Bjoern Peters|Melanie Courtot|Randi Vita					subclass		analyte assay	induced hemagglutination									measurement datum				
OBI:0000872	serum neutralization of viral infectivity assay		metadata complete	influenza neutralization assay	An analyte assay that measures virus-neutralizing abilities of different sera. Different dilutions of serum are mixed with virus and used to infect cells. At the lower dilutions, antibodies will block infection, but at higher dilutions, there will be too few antibodies to have an effect.The neutralization titer is expressed as the reciprocal of the highest dilution at which virus infection is blocked.	url:http://www.virology.ws/2009/05/28/influenza-microneutralization-assay/		Bjoern Peters|Melanie Courtot					subclass		analyte assay			blood serum specimen				Viruses				immunoglobulin-mediated neutralization			
OBI:0000874	detection of specific nucleic acid polymers with complementary probes				An analyte assay in which a specified input material (the evaluant) is examined for the presence or quantity of specified nucleic acid polymers, which are identified based on the use of complementary nucleic acid probes.	IEDB	Primer based PCR assay, Norther blot, Southern Blot, and RNAse protection assays.	IEDB					equivalent		analyte assay					nucleic acid		('nucleic acid' and ('has role' some 'complementary nucleotide probe role'))							
OBI:0000875	viral hemagglutination inhibition assay			viral haemagglutinin inhibition assay|HIA|HAI|hemagglutination inhibition|biological activity	An assay that measures the ability of an evaluant to inhibit hemagglutination by a virus. Hemagglutinin is a viral protein which binds to sialic acid receptors on cells or to erythrocytes, causing the cells to clump. Loss of clumping indicates that the evaluant blocks binding of hemagglutinin to sialic acid receptors.	OBI branch derived	Examining the ability of a monoclonal antibody to inhibit hemagglutination by Influenza A virus by comparing the levels of hemagglutination with and without the presence of the antibody.	Bjoern Peters|Melanie Courtot|Randi Vita					subclass		assay	induced hemagglutination						Viruses							
OBI:0000882	cell-cell killing assay				A cytometry assay that monitors a cell population to track how many are killed by other cells.	IEDB	Autologous EBV-transformed B-LCL were used as target cells for the influenza virus-specific CTL assays. Equal volumes of target and effector cells were added to tissue culture plates, and 1:2 serial dilutions of effectors were made. After a 4-h incubation of the effector cells with the target cells, supernatants were collected and counted with the LKB 1272 Clinigamma counter. Percent specific killing was determined with the following equation: (experimental 51Cr release - spontaneous 51Cr release)/(maximum 51Cr release - spontaneous 51Cr release) x 100.	IEDB					equivalent		cytometry assay									cell		cell killing			
OBI:0000883	in vivo cell killing assay				A cell killing assay that measures if and how many target cells are killed within an organism.	IEDB	Labeling two populations of cells with different levels of CFSE, pusling one population with an influenza peptide, injecting the cells into a mouse, and recoving cells 24 hours later. By comparing the recovery rate of cells with different CFSE labeling, it is possible to determine if there was specific killing of peptide pulsed target cells.	IEDB					equivalent		cell-cell killing assay			organism											
OBI:0000891	cell proliferation assay				A cytometry assay which measures the degreee to which input cells are replicating.	IEDB	Measuring the amount of tritiated thymidine incorporated by dividing cells as a proxy for cell proliferation.	IEDB					equivalent		cytometry assay											cell population proliferation			
OBI:0000892	Southern blot assay		metadata complete	Southern blot	An analyte assay that detects the presence of a specific sequence in a DNA sample, which has been digested by restriction enzymes, resolved by gel electrophoresis, and blotted to a solid support, followed by hybridization of a probe raised against a specific sequence and detected with fluorescence or radioactivity.	OBI	PMID: 9452032. Germline mutations detected in the von Hippel-Lindau disease tumor suppressor gene by Southern blot and direct genomic DNA sequencing.	Philippe Rocca-Serra|Marcus Chibucos					subclass		analyte assay	nucleic acid hybridization	detection of specific nucleic acid polymers with complementary probes	DNA extract		deoxyribonucleic acid					measurement datum	site			
OBI:0000893	real time polymerase chain reaction assay		metadata complete	Q-PCR|quantitative real time polymerase chain reaction|kinetic polymerase chain reaction|qPCR	An assay, based on the PCR, that amplifies and simultaneously quantifies a specific DNA molecule based on the use of complementary probes/primers. It enables both detection and quantification (as absolute number of copies or relative amount when normalized to DNA input or additional normalizing genes) of one or more specific sequences in a DNA sample.	url:http://en.wikipedia.org/wiki/Real-time_polymerase_chain_reaction		Bjoern Peters|Melanie Courtot					subclass		assay	polymerase chain reaction													
OBI:0000897	DEPC structure mapping assay		ready for release		A single-nucleotide-resolution nucleic acid structure mapping assay which determines nucleic acid secondary structure at a nucleotide resolution scale using DEPC as reagent and chemical probe	RNA ontology	PMID:2446263. Probing the structure of RNAs in solution. Nucleic Acids Res. 1987 Nov 25;15(22):9109-28.	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0000903	in vitro cell killing assay				A cell killing assay that measures if and how many target cells are actively killed by other cells in a cell culture.	IEDB	Autologous EBV-transformed B-LCL were used as target cells for the influenza virus-specific CTL assays. Equal volumes of target and effector cells were added to tissue culture plates, and 1:2 serial dilutions of effectors were made. After a 4-h incubation of the effector cells with the target cells, supernatants were collected and counted with the LKB 1272 Clinigamma counter. Percent specific killing was determined with the following equation: (experimental 51Cr release - spontaneous 51Cr release)/(maximum 51Cr release - spontaneous 51Cr release) x 100.	IEDB					equivalent		cell-cell killing assay			cultured cell population											
OBI:0000904	reporter cell line analyte detection bioassay				An analyte assay in which a cell line whose growth is known to be affected by the presence of a specific type of material (the anlyte) is cultured in the presence of an input material (the evaluant) in order to detect presence of the analyte in the evaluant.	IEDB	CTLL-2 cells were grown in the presence of hybridoma supernatants and their growth was monitored by a 3H-thymidine incorporation cell proliferation assay in order to detect IL-2 in the hybridoma supernatant.	IEDB					subclass	logical definition does not specify how the cell line is used as a reporter	analyte assay	maintaining cell culture						cell line							
OBI:0000910	radio immuno assay				An assay in which a radioactive labeled antigen or antibody is used to determine the interaction between an antigen and its receptor. This can be used to detect the presence of an antigen of interest in an input sample or determine the specificity of an input antibody.	IEDB	To evaluate the specificity of antibody binding to 35S-labeled IA-2(256-760) in comparison with 35S-labeled IA-2IC construct, the mutual inhibition activity of different concentrations of unlabeled IA-2IC and/or IA-2(256-760) fragments were tested. Unlabeled recombinant IA-2(256-760) and/or IA-2IC (0.5-, 1-, 2-, and 4-fold the amount of 35S-labeled protein) were added to each tube and incubated overnight at 4C with patient sera. The following day, after incubation with radiolabeled 35 IA-2(256-760) or 35S IA-2IC proteins, samples were processed with the usual radioimmunoprecipitation assay.	IEDB					subclass	logical definition does not capture the interaction aspect	assay								('material entity' and ('bearer of' some radioactive))						
OBI:0000911	real time reverse-transcription polymerase chain reaction assay		metadata complete	RRT-PCR|qRT-PCR|RT-rt PCR	An assay that uses a reverse transcription step (an RNA strand is reverse transcribed into its DNA complement using the enzyme reverse transcriptase) before a PCR assay.			Melanie Courtot|Bjoern Peters					subclass		assay	artificially induced reverse transcription	real time polymerase chain reaction assay								information content entity	gene expression			
OBI:0000912	X-ray crystallography 3D molecular structure determination assay				A 3D molecular structure determination assay in which the diffraction of pattern of X-ray beams in a crystal of purified material entities is used to resolve the 3-dimensional structure of the material entity of interest.	IEDB	Crystallizing an antibody:antigen complex, and recording the diffraction pattern of a synchrotron beam, and assembling the 3d complex structure based on homologous complexes.	IEDB					subclass	logical definition does not capture diffraction pattern	3D molecular structure determination assay						X-ray source								
OBI:0000913	promoter activity detection by reporter gene assay				An assay in which the activity of a promoter in a cell is monitored by using a reporter gene that was inserted in a genomic location under control of the promoter and whose expression can be easily detected based on qualities or functions of the gene.	IEDB	A T cell hybridoma in which the beta-galactosidase gene (lacZ) was inserted under the control of the IL-2 promoter, is detected by adding the X-gal substrate which when cleaved by lacZ results in detectable blue color.	IEDB					subclass	logical definition does not capture gene insertion	assay									cell		core promoter sequence-specific DNA binding			
OBI:0000916	flow cytometry assay			FACS	A cytometry assay in which an input cell population is put in solution, is passed by a laser, and optical sensors are used to detect scattering of the laser light and/or fluorescence of specific markers to count and characterize the particles in solution.	IEDB	Using a flow cytometer to quantitate the percent of CD3 positive cells in a population by labeling them with a FITC tagged anti-CD3 antibody.	IEDB					equivalent		cytometry assay		fluorescence detection assay				flow cytometer								
OBI:0000920	cytometric bead array assay			Luminex assay	An analyte assay in which a series of beads coated with antibodies, antigens, or other small molecules are used to detect an analyte of interest.	IEDB	Using a Luminex machine to detect IFN-gamma and IL-10 in the supernatant of a cell culture.	IEDB					equivalent		analyte assay		fluorescence detection assay					assay bead							
OBI:0000923	surface plasmon resonance binding assay				A binding assay that uses the detection of electromagnetic waves in a surface to detect material entities adsorbed to the surface, which change the local optical index of refraction.	IEDB	Running a Biacore instrument to measure the affinity, on and off rates of binding of a plate bound antibody to a antigen passing by in flow.	IEDB					subclass	logical definition does not capture details of processing	binding assay						surface plasmon resonance instrument								
OBI:0000944	handedness assay		metadata complete	handedness test	An assay that measures the unequal distribution of fine motor skill between the left and right hands typically in human subjects by means of some questionnaire and scoring procedure.	url:http://en.wikipedia.org/wiki/Handedness	The Edinburgh handedness assay is a specific method of determing handedness	Helen Parkinson					subclass		assay										measurement datum	handedness			
OBI:0000957	self reported handedness assessment		metadata incomplete		An assay where a person makes a statement that indicates what handedness he has from a choice of different categories.								subclass		handedness assay										categorical measurement datum	handedness			
OBI:0000964	in live cell assay		metadata incomplete		An assay in which a measurement is made by observing entities located in a live cell.								subclass		assay														
OBI:0000966	in live organism assay		metadata complete	in vivo assay	An assay in which a measurement is made by observing entities located in an organism.		Measuring the rate in which cells that are pulsed with a peptide are killed inside a mouse by peptide specific cytotoxic T cells.	Bjoern Peters					subclass		assay														('has participant' some ('material entity' and ('located in' some (organism and ('has quality' some alive)))))
OBI:0000975	cell-cell binding detection by flow cytometry assay				A binding assay which uses a flow cytometer to detect pairs of cells that are bound to each other by staining them with different fluorescent labels.	IEDB	Staining a B cell with PE and staining a T cell with FITC, incubating them together with a peptide, and counting the number of co-stained conjugates.	IEDB					equivalent		cytometry assay		flow cytometry assay									binding			
OBI:0000978	in container assay		metadata incomplete		An assay in which a measurement is made by observing entities located in a container.								subclass		assay														
OBI:0001001	Edinburgh handedness assay		metadata complete		An assay that uses a set of questions (the Edinburgh Handedness inventory) to generate a score that can be used to assess the dominance of a person's right or left hand in everyday activities. The inventory can be used by an observer assessing the person, or by a person self-reporting hand use. The latter method tends to be less reliable due to a person over-attributing tasks to the dominant hand.	url:http://en.wikipedia.org/wiki/Edinburgh_Handedness_Inventory|PMID:5146491	Verdino (1998) Perceptual and Motor Skills. 86 (2): 476_8. (PMID: 9638746) uses this measure in an experimental study: ""Individuals of extreme handedness based on the Edinburgh Handedness Inventory (laterality Quotients of +90 to +100 and -100 and +54; 50 each)""	Alan Ruttenberg|Jessica Turner|Gully Burns (orcid:0000-0003-1493-865X)					subclass		handedness assay			Homo sapiens							Edinburgh score				(has_specified_input value 'Edingburgh handedness inventory')
OBI:0001005	RNASE CL3 structure mapping assay		ready for release	single nucleotide resolution mapping assay using RNAse CL3	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAse CL3 as reagent and enzymatic probe.	RNA ontology	PMID:16453415	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				ribonuclease CL3 (chicken) 				secondary structure of RNA molecule			
OBI:0001006	CMCT structure mapping assay		ready for release	single nucleotide resolution mapping assay using CMCT probe	A single-nucleotide-resolution nucleic acid structure mapping assay which uses CMCT as reagent and chemical probe to generate data and information at nucleotide resolution scale contributing to the determination of nucleic acid secondary structure	RNA ontology	PMID:2422386 and PMID:2446263	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0001008	MPE-Fe(II) structure mapping assay		ready for release	single nucleotide resolution mapping assay using Fe-MP probe	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using Fe-MP as reagent and chemical probe.	RNA ontology	PMID:6209709	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									RNA extract	measurement datum	secondary structure of RNA molecule			
OBI:0001011	ENU structure mapping assay		ready for release	single nucleotide resolution mapping assay using ENU probe	A single-nucleotide-resolution nucleic acid structure mapping assay that determines the secondary structure of a nucleic acid at the nucleotide resolution scale which uses ENU as reagent and chemical probe	RNA ontology	PMID:7002606 and PMID:2446263	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of RNA molecule			
OBI:0001012	RNASE V1 structure mapping assay		ready for release	single nucleotide resolution mapping assay using RNAse V1	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAse V1 as reagent and enzymatic probe	RNA ontology	PMID:7031604	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				ribonuclease V1 (cobra)			secondary structure of RNA molecule				
OBI:0001013	kethoxal structure mapping assay		ready for release		A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at nucleotide resolution scale using kethoxal as reagent and chemical probe	RNA ontology	single nucleotide resolution mapping assay using Kethoxal probe	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0001014	single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing		ready for release		A single-nucleotide-resolution nucleic acid structure mapping assay that determines structural information about the RNA species under study using proteins acting as enzymatic probes.	RNAO and OBI		Philippe Rocca-Serra				https://github.com/obi-ontology/obi/issues/808	equivalent		single-nucleotide-resolution nucleic acid structure mapping assay							enzyme				secondary structure of sequence macromolecule			
OBI:0001015	DMS structure mapping assay		ready for release	single nucleotide resolution mapping assay using DMS probe	A single-nucleotide-resolution nucleic acid structure mapping assay which determins nucleic acid secondary structure at a nucleotide resolution scale using DMS as reagent and chemical probe	RNA Ontology	PMID:6159633 and PMID:2446263	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0001016	DNASE 1 structure mapping assay		ready for release	single nucleotide resolution mapping assay using DNAse I|DNAse footprinting assay	A single-nucleotide-resolution deoxyribonucleic acid structure mapping assay which uses DNAse 1 as reagent and enzymatic probe to generate data and information at nucleotide resolution scale contributing to the determination of nucleic acid secondary structure	RNA ontology	PMID:3773731	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				deoxyribonuclease-1				secondary structure of sequence macromolecule			
OBI:0001017	single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing		ready for release		A single-nucleotide-resolution nucleic acid structure mapping assay that determines structural information about the RNA species under study using small chemical compounds acting as chemical probes.	RNAO and OBI		Philippe Rocca-Serra					equivalent		single-nucleotide-resolution nucleic acid structure mapping assay							('molecular entity' and not enzyme)				secondary structure of sequence macromolecule			
OBI:0001018	Rhodium DNA structure mapping assay		ready for release	single nucleotide resolution mapping assay using Rhodium probe	A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using Rhodium as reagent and chemical probe.	RNA ontology	PMID:2843807	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0001019	RNA ADA I RNA structure mapping assay		ready for release	single nucleotide resolution mapping assay using RNA adenosine deaminase I	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNA adenosine deaminase I as reagent and enzymatic probe.	RNA ontology	PMID:7527340	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				double-stranded RNA-specific adenosine deaminase				secondary structure of RNA molecule			
OBI:0001020	Lead structure mapping assay		ready for release	single nucleotide resolution mapping assay using Lead probe	A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at nucleotide resolution scale using lead as reagent and chemical probe	RNA ontology	PMID:2686708	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0001021	RNASE T2 structure mapping assay		ready for release	single nucleotide resolution mapping assay using RNAse T2	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAse T2 as reagent and enzymatic probe	RNA ontology	PMID:6207483	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				ribonuclease T2				secondary structure of RNA molecule			
OBI:0001022	gene dosage assay		metadata complete		An assay that measures changes in phenotype due to increased or decreased dosage of a single allele of a gene.	David Osumi Sutherland		Bjoern Peters					subclass		assay														
OBI:0001023	Fe-BABE RNA structure mapping assay		ready for release	single nucleotide resolution mapping assay using Fe-BABE probe	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic secondary structure at a nucleotide resolution scale using Fe-BABE as reagent and chemical probe.	RNA ontology	PMID: 7862644	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									RNA extract	measurement datum	secondary structure of RNA molecule			
OBI:0001024	RNASE U2 structure mapping assay		ready for release	single nucleotide resolution mapping assay using RNAse U2	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using RNAase U2 as reagent and enzymatic probe	RNA ontology	PMID:409999	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				ribonuclease U2				secondary structure of RNA molecule			
OBI:0001025	binding constant determination assay		metadata incomplete		A binding assay where the specified output is a binding constant	IEDB	Determination of KD value for an antibody binding a protein using a BIACORE assay.	Bjoern Peters|Randi Vita|Jason Greenbaum					subclass		binding assay										binding constant				
OBI:0001026	NMIA RNA structure mapping assay		ready for release	single nucleotide resolution mapping assay using NMIA probe|SHAPE mapping assay	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at the nucleotide resolution scale using NMIA as reagent and chemical probe	RNA ontology	PMID: 15796531	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									RNA extract	measurement datum	secondary structure of RNA molecule			
OBI:0001027	Terbium RNA structure mapping assay		ready for release	single nucleotide resolution mapping assay using Terbium probe	A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using Terbium as reagent and chemical probe	RNA ontology	PMID:10772868	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									RNA extract	measurement datum	secondary structure of RNA molecule			
OBI:0001029	OH-radical structure mapping assay		ready for release	single nucleotide resolution mapping assay using OH-radical probe|MOHCA assay|OH footprinting assay	A single-nucleotide-resolution nucleic acid structure mapping assay hat determines nucleic acid secondary structure at a nucleotide resolution scale using hydroxyl radical as reagent and chemical probe	RNA ontology	PMID:2501870	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of sequence macromolecule			
OBI:0001030	RNASE T1 structure mapping assay		ready for release	single nucleotide resolution mapping assay using RNAse T1	A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale uses RNAse T1 as reagent and enzymatic probe.	RNA ontology	PMID:114514	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				guanyl-specific ribonuclease T1				secondary structure of RNA molecule			
OBI:0001035	Nuclease S1 structure mapping assay		ready for release	single nucleotide resolution mapping assay using Nuclease S1	A single-nucleotide-resolution deoxyribonucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using DNAse 1 as reagent and enzymatic probe.	RNA ontology	PMID:363143	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				nuclease S1				secondary structure of sequence macromolecule			
OBI:0001038	Ruthenium structure mapping assay		ready for release		A single-nucleotide-resolution nucleic acid structure mapping assay that determines nucleic acid secondary structure at a nucleotide resolution scale using Rhutenium as reagent and chemical probe	RNA Ontology	PMID:3016894	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									('deoxyribonucleic acid' or 'ribonucleic acid')	measurement datum	secondary structure of RNA molecule			
OBI:0001039	inline probing RNA structure mapping assay		ready for release		A single-nucleotide-resolution ribonucleic acid structure mapping assay that determines nucleic acid secondary structure at nucleotide resolution scale using intromolecular reactivity	RNA ontology	PMID:10573122 and PMID: 18369975	Philippe Rocca-Serra					subclass		single-nucleotide-resolution nucleic acid structure mapping assay using chemical probing									RNA extract	measurement datum	secondary structure of RNA molecule			
OBI:0001145	3D structure determination of bound molecular complex assay				A 3D molecular structure determination assay in which a complex of 2 or more molecular enties is characterized which provides information on their binding configuration.	IEDB	Determination of a 3D structure of an antibody binding a protein by X-Ray crystallography, which identifies the specific binding site of the antibody.	IEDB					equivalent		3D molecular structure determination assay										3D structural organization datum	complex of molecular entities			
OBI:0001146	binding assay				An assay with the objective to characterize the disposition of two or more material entities to form a complex.		Determination of KD value for an antibody binding a protein using a BIACORE assay. Using plate bound antigen in an ELISA to determine if a mixture of serum antibodies bind the antigen. The following are NOT binding assays, as the desired output is not binding data: RNA microarray experiments to determine levels of gene expression. ChIP experiments to determine where in DNA a transcription factor binds. Using an IL-2 antibody on an ELISA plate to determine presence of IL-2 after stimulating a T cell culture.	Bjoern Peters|Randi Vita|Jason Greenbaum					subclass		assay										binding datum	binding			
OBI:0001158	age determination assay		metadata complete	age measurement assay	An assay that determines the duration of part of the life of an organism, where the initial time point is the beginning of some transitional state (such as birth or when planted).	OBI group		Alan Ruttenberg	This assay measures time not developmental stage. we recognize that development takes different time periods under different conditions such as media / temperature. For example, age measurement assay of fly age, the output likes 28 days but not mid-life of age at room temperature.				subclass		assay			organism							age measurement datum				
OBI:0001170	reverse transcription polymerase chain reaction assay		metadata complete		An assay that determines the concentration of RNA in a sample in which an RNA strand is first reverse transcribed into its DNA complement (complementary DNA, or cDNA) using the enzyme reverse transcriptase, and the resulting cDNA is amplified using traditional or real-time PCR.	Penn Group		Chris Stoeckert|Jie Zheng					subclass		assay	reverse transcribed polymerase chain reaction		RNA extract						RNA extract	information content entity	gene expression			
OBI:0001177	RNA sequencing assay		metadata complete		An assay that determines the sequence of an RNA molecule.	Bjoern Peters		Bjoern Peters					equivalent		sequencing assay	artificially induced reverse transcription		RNA extract			DNA sequencer			RNA extract	sequence data	primary structure of RNA molecule			
OBI:0001178	efficacy of epitope intervention experiment		metadata complete	efficacy of in vivo intervention	An assay that tests  if inducing an epitope specific immune response in an organism has an effect, such as the ability to prevent, treat or exacerbate diseases in the organism.			Bjoern Peters					subclass		assay														
OBI:0001179	epitope protection from infectious challenge experiment		metadata complete	protection from infectious challenge	An epitope protection experiment in which the ability of the epitope to protect the host from an infection is assessed.			Bjoern Peters					subclass		epitope protection experiment														
OBI:0001183	epitope protection from tumor challenge experiment		metadata complete	protection from tumor challenge	An epitope protection experiment in which the ability of the epitope to protect the host from developing tumors is assessed.			Bjoern Peters					subclass		epitope protection experiment														
OBI:0001184	epitope protection experiment		metadata complete	protection from challenge	An efficacy of epitope intervention experiment that tests the efficacy of inducing an immune epitope response to prevent disease in a host.			Bjoern Peters					subclass		efficacy of epitope intervention experiment														
OBI:0001186	epitope protection from infectious challenge experiment based on pathogen burden		metadata complete	burden after infectious challenge	An epitope protection from infectious challenge experiment in which the readout is a reduction in the presence of pathogens in the host compared to controls.			Bjoern Peters					subclass		epitope protection from infectious challenge experiment														
OBI:0001187	infectious agent detection assay		metadata complete		An assay that measures the presence or amount of an infectious agent in an evaluant		Culturing a sputum sample on agar medium to detect bacterial growth; Stain slices of liver from a mouse to count presence of infectious centers; PCR amplification using primers specific for influenza virus.	Bjoern Peters|Randi Vita|Jason Greenbaum|Richard Scheuermann					subclass		assay											infection			
OBI:0001188	epitope disease exacerbation experiment		metadata complete	exacerbation assay	An efficacy of epitope intervention experiment that tests the ability of inducing an epitope immune response to increase the severity of an existing disease in the host.			Bjoern Peters					subclass		efficacy of epitope intervention experiment														
OBI:0001189	epitope protection experiment based on survival		metadata complete	host survival after challenge	An epitope protection experiment that determines the success of the epitope intervention based on increased survival of the host.			Bjoern Peters					subclass		epitope protection experiment														
OBI:0001190	epitope treatment experiment		metadata complete	decreased disease symptoms after treatment	An epitope intervention experiment that tests the ability of inducing an epitope immune response to treat an existing disease  in the host.			Bjoern Peters					subclass		efficacy of epitope intervention experiment														
OBI:0001221	ChIP-chip by SNP array assay		metadata complete		A ChIP-ChIP assay in which immunoprecipitated chromatin is run on a SNP array to detect polymorphism specific DNA elements in the isolated chromatin	EFO:0002764		ArrayExpress production team					subclass		ChIP-chip assay						SNP microarray								
OBI:0001235	transcription profiling by tiling array assay		metadata complete		A transcription profiling by array assay that uses a tiling path array.	EFO:0002769		James Malone					subclass		transcription profiling by array assay						tiling microarray								
OBI:0001247	genotyping by high throughput sequencing assay		metadata complete		A genotyping assay that uses a high througput sequencer	EFO:0002771		James Malone					subclass		genotyping assay						DNA sequencer								
OBI:0001248	ChIP-chip assay		metadata complete	ChIP-on-chip assay	An assay in which chromatin is immunoprecipitated and subsequently analyzed using a DNA microarray to identify which parts of DNA are part of the isolated chromatin	url:http://en.wikipedia.org/wiki/ChIP-on-chip		James Malone|Bjoern Petesr					equivalent		ChIP assay		microarray assay				DNA microarray								
OBI:0001266	DNA methylation profiling by high throughput sequencing assay		metadata complete		A DNA methylation profiling assay in which the methylation state of DNA is determined and can be compared between samples using sequencing based technology	EFO:0002761		ArrayExpress production team|James Malone|Helen Parkinson					subclass		DNA methylation profiling assay						DNA sequencer								
OBI:0001271	RNA-seq assay		metadata complete	transcription profiling by high throughput sequencing	An RNA sequencing assay that determines an RNA sequence by analyzing the transcibed regions of the genome and or to quantitate transcript abundance.	EFO:0002770		James Malone					subclass		RNA sequencing assay											gene expression			
OBI:0001274	genotyping by array assay		metadata complete		A genotyping assay that uses an array	EFO:0002767		ArrayExpress production team					subclass		genotyping assay						DNA microarray								
OBI:0001282	translation profiling assay		metadata complete		An assay in which surface-bound, translationally competent ribosome complexes are used to generate a translation profile for mRNA, which mRNA may be a single molecular species, or a combination of species, including complex mixtures such as those found in the set of mRNAs isolated from a cell or tissue. One or more components of the surface-bound ribosome complex may be labeled at specific positions to permit analysis of multiple or single molecules for determination of ribosomal conformational changes and translation kinetics. Translation profiles are used as the basis for comparison of an mRNA or set of mRNA species. The translation profile can be used to determine such characteristics as kinetics of initiation, kinetic of elongation, identity of the polypeptide product, and the like. Analysis of translation profiles may be used to determine differential gene expression, optimization of mRNA sequences for expression, screening drug candidates for an effect on translation.	EFO:0001033		James Malone					subclass		analyte assay													molecular feature identification objective	
OBI:0001304	RNAi profiling by array assay		metadata complete		An assay in which double stranded RNA is synthesized with a sequence complementary to a gene(s) of interest and introduced into a cell or organism, where it is recognized as exogenous genetic material and activates the RNAi pathway resulting in knockdown of the transcripts and providing a means to study downstream changes in gene expression.	EFO:0001030		James Malone					subclass		analyte assay					ribonucleic acid	DNA microarray							molecular feature identification objective	
OBI:0001318	proteomic profiling by array assay		metadata complete		An assay that detects proteins in a sample (quantified or otherwise analyzed), e.g. antibody profiling using an array based technology.	EFO:0002765		James Malone					subclass		analyte assay					protein	protein microarray			(specimen and ('has part' some protein))				molecular feature identification objective	
OBI:0001332	DNA methylation profiling by array assay		metadata complete		A DNA methylation profiling assay in which the methylation state of DNA is determined and can be compared between samples using array technology	EFO:0002759		James Malone					subclass		DNA methylation profiling assay						DNA microarray								
OBI:0001335	microRNA profiling by array assay		metadata complete		An assay that analyses the microRNA component of the transcriptome using a microRNA array.	EFO:0000753		James Malone					subclass		microRNA profiling assay					ribonucleic acid	DNA microarray			(specimen and ('has part' some 'ribonucleic acid'))	measured expression level	miRNA		transcription profiling identification objective	
OBI:0001361	transcription profiling by RT-PCR assay		metadata complete		A transcription profiling assay that uses reverse transcription PCR (RT-PCR).	EFO:0002943		Anna Farne					subclass		transcription profiling assay	reverse transcribed polymerase chain reaction					PCR instrument								
OBI:0001393	comparative genomic hybridization by array assay		metadata complete	array CGH	An assay that measures changes in DNA sequence copy number using a microarray. For example the analysis of LOH in tumor cells vs a non diseased sample or the comparison of clinical isolated of disease causing bacteria.	EFO:0000749		James Malone					subclass		genotyping assay					deoxyribonucleic acid	DNA microarray			(specimen and ('has part' some 'deoxyribonucleic acid'))	genotype information			molecular feature identification objective	
OBI:0001419	ChIP-chip by tiling array assay		metadata complete		A ChIP-ChIP assay in which immunoprecipitated chromatin is run on a tiling array that covers stretches of DNA to to detect which elements in those stretches are present in the isolated chromatin	EFO:0002762		ArrayExpress production team					subclass		ChIP-chip assay						tiling microarray								
OBI:0001463	transcription profiling by array assay		metadata complete	RNA profiling by array assay	A transcription profiling assay that uses array technology.	EFO:0002768		James Malone				https://sourceforge.net/p/obi/obi-terms/757/	subclass		transcription profiling assay						DNA microarray								
OBI:0001476	phage display binding assay				A binding assay in which a collection of phages expressing a library of different peptides or protein fragnments is used to infect cells, followed by screening for cells that bind a protein of interest, and identifiying the sequence of infecting phages to determine a suitable binding partner.	IEDB	Using a commercial library of phages that produce random peptide sequences to infect E coli cells, and screening them for binding to a selecting antibody of unknown specificity. By iteratively using phages from selected E coli cells and repeating this process, phages encoding high affinity peptides for the antibody are selected, sequenced, and thereby the specificity of the antibody is elucidated.	IEDB					equivalent		binding assay	phage display library panning	sequencing assay							phage display library					
OBI:0001488	epitope tolerance induction experiment		metadata complete	tolerance induction	An efficacy of epitope intervention experiment that tests the ability of the intervention to decrease an existing immune response	IEDB		IEDB					subclass		efficacy of epitope intervention experiment														
OBI:0001491	binding assay using radioactivity detection		metadata complete		A binding assay that uses radioactivity detection as an indicator of binding.	IEDB		Bjoern Peters|Randi Vita					equivalent		binding assay		radioactivity detection												
OBI:0001499	binding assay using fluorescence detection		metadata complete		A binding assay that uses fluorescence detection as an indicator of binding.	IEDB		Bjoern Peters|Randi Vita					equivalent		binding assay		fluorescence detection assay												
OBI:0001501	fluorescence detection assay				An assay in which a material's fluorescence is determined.	IEDB	Using a laser to stimulate a cell culture that was previously labeled with fluorescent antibodies to detect light emmission at a different wavelength in order to determine the presence of surface markers the antibodies are specific for.	IEDB					equivalent		assay									('material entity' and ('bearer of' some fluorescence))					
OBI:0001591	direct binding assay		metadata complete		A binding assay that measures the formation or disassociation of a complex of 2 material entities directly without use of a competitve ligand.	IEDB	Detecting the binding of a fluorescently labeled antibody to a peptide bound to the bottom of an ELISA plate, by incubating the antibody in the well, washing the plate, and detecing fluorescence which is a proxy for the presence of the bound antibody._	Bjoern Peters|Randi Vita					subclass		binding assay														
OBI:0001593	competitive inhibition of binding assay				A binding assay that detects the inhibition of binding between 2 material entities known to form a complex by the addition of a third material entity of interest. Inhibition of binding between the 2 materials reflects binding by the third material.	IEDB	Detecting the inhibition of binding of a fluorescently labeled antibody to its known protein ligand bound to the bottom of an ELISA plate, by incubating the antibody in the presence of a peptide of interest, adding it to the plate, washing the plate, and detecing fluorescence which is a proxy for the presence of the bound antibody. Reduction in binding due to the presence of the peptide indicates that the antibody binds the peptide._	IEDB					subclass	logical definition does not capture inhibition of binding	binding assay									('material entity' and ('has role' some 'competitive binding reference ligand role'))					
OBI:0001624	organism species detection assay		metadata complete	organism identification assay	An organism detection assay that identifies the organism species in a specimen.	NIAID GSCID-BRC metadata working group		Chris Stoeckert|Jie Zheng					equivalent		organism detection assay														(achieves_planned_objective some 'organism species detection objective')
OBI:0001630	analytical chromatography				An analyte assay that uses a biomaterial's preferential affinity for either the mobile phase or the stationary phase to separate it from other materials and thereby detect its presence in an input material.	IEDB	Detection of the presence of blood group A specific antibodies by passing a serum sample through an affinity column containing blood group A carbohydrate, and quantifying the protein content eluted from the column.	IEDB					equivalent		analyte assay						chromatography column	chromatography consumable							
OBI:0001631	electron microscopy imaging assay				An imaging assay in which an electrons are used to probe the density, shape and composition of an input material which are detected in an electron microscope and utilized to produce an image of the material.	IEDB	Using gold labeled antibodies to stain a mouse brain slice and use electron microscopy to generate an image that shows the location of the antibodies within the tissue structure.	IEDB					equivalent		imaging assay						electron microscope								
OBI:0001632	immuno staining assay				A assay detecting a molecular label assay in which the label is attached to an antibody so that substances are marked based on the antibody's binding specificity.	IEDB	Detection of the presence of VCAM molecules on the surface of cells in a histology slide using an enzyme-linked antibody followed by enzyme activation to release a dye.	IEDB					subclass	logical definition does not capture details of attachment	assay detecting a molecular label								immunoglobulin complex, circulating						
OBI:0001634	calorimetric binding assay				A binding assay in which the heat generated or absorbed during a binding event is measured, which allows determination of binding constants, reaction stoichiometry, enthalpy and entropy.	IEDB	A solution of a proteins is titrated into a solution containing a specific antibody. The heat released upon their interaction (delta H) is monitored over time where each peak represents a heat change associated with the injection of a small volume of sample into the reaction cell. As successive amounts of the ligand are titrated into the cell, the quantity of heat absorbed or released is in direct proportion to the amount of binding. As the system reaches saturation, the heat signal diminishes until only heats of dilution are observed. A binding curve is then obtained from a plot of the heats from each injection against the ratio of protein and antibody in the cell ._	IEDB					equivalent		binding assay						calorimeter								
OBI:0001635	antibody binding detection by fluorescence quenching				A binding assay in which affinity is measured by detecting a change in fluorescence (usually quenching) that occurs upon binding of the antibody to the ligand. The fluorescent signal that is affected by binding is either from an exogenous fluorophore attached to the ligand, or is the intrisic fluorescence of aromatic (tryptophan) residues on the binding site of the antibody (no conjugated fluorophore necessary) or, less commonly, on the ligand binding region (epitope).	IEDB	The binding affinity of Fab 4-4-20 for the fluorescein molecule was determined using the fluorescence quenching assay, by placing the Fab and the fluorescein together in a well and measuring the fluorescence after each addition of increasing concentrations of the Fab (PMID: 8637844).	IEDB					subclass	logical definition does not capture quenching	fluorescence quenching binding assay		fluorescence detection assay	immunoglobulin complex, circulating								binding			
OBI:0001668	split-ubiquitin assay		ready for release		A binding assay that screens membrane soluble proteins by fusion of two integral membrane proteins (bait and prey) to two different ubiquitin moieties. One moiety is also fused to a transcription factor (TF) that can be cleaved off by ubiquitin specific proteases. Upon bait and prey interaction, Nub and Cub-moieties assemble, reconstituting the split-ubiquitin. The reconstituted split-ubiquitin molecule is recognized by ubiquitin specific proteases, which cleave off the reporter protein, allowing it to induce the transcription of reporter genes.	url:https://en.wikipedia.org/wiki/Two-hybrid_screening	Split-ubiquitin two-hybrid assay to analyze protein-protein interactions at the endosome: application to Saccharomyces cerevisiae Bro1 interacting with ESCRT complexes, the Doa4 ubiquitin hydrolase, and the Rsp5 ubiquitin ligase. PMID:17513562	Philippe Rocca-Serra|Marcus Chibucos					subclass		binding assay									genetically modified material	data item	protein domain specific binding		protein and DNA interaction identification objective	
OBI:0001669	far-western blot assay		ready for release		An assay that measures protein-protein interactions by separating target proteins on an SDS-PAGE gel, transfering them to a solid substrate, hybridizing with a protein probe and visualizing bound proteins using a probe-directed antibody. This is a adaptation on the western blot assay.	PMID:18079728	Studying protein-protein interactions via blot overlay or Far Western blot. PMID:15064457	Philippe Rocca-Serra|Marcus Chibucos					subclass		binding assay		western blot assay							protein-containing complex	data item	protein domain specific binding			
OBI:0001670	RNA protection assay		ready for release	RPA|RNAse protection assay	An assay that determines the presence and estimates abundance of transcript species by first creating an homo or heteroduplex by adding a specific, complementary sequence to the sequence of interest and then exposing the mixture of ribonuclease, which will degrade only single stranded molecules. A detection step will reveal if the sample contained a sequence of interest.	PMID:16491611	Absolute concentrations of mRNA for type I and type VI collagen in the canine meniscus in normal and ACL-deficient knee joints obtained by RNase protection assay. PMID:11518275	Philippe Rocca-Serra|Marcus Chibucos					subclass		assay									RNA extract	data item	gene expression			
OBI:0001671	electrophoretic mobility shift assay		ready for release	EMSA|gel shift assay|gel mobility shift assay|band shift assay|gel retardation assay	An assay that measures information about Protein-DNA or Protein-RNA interactions using gel electrophoresis and relying on the fact the molecular interactions will cause the heterodimer to be retarded on the gel when compared to controls corresponding to protein extract alone and protein extract + neutral nucleic acid.	PMID:6269071	Electrophoretic mobility shift assay reveals a novel recognition sequence for Setaria italica NAC protein. PMID:21918373	Philippe Rocca-Serra|Marcus Chibucos					subclass		binding assay									RNA extract	data item	sequence-specific DNA binding			
OBI:0001672	gene knock-down assay		ready for release		An assay which transiently disrupts gene transcripts by expressing antisense RNA constructs or delivering RNA interfering molecules in cells.	PMID:17430206		Philippe Rocca-Serra|Marcus Chibucos					subclass		assay	gene knockdown								cultured cell population		(GO:0003674 or biological_process)			
OBI:0001673	nano-cap analysis of gene expression assay		ready for release	nano-CAGE	A transcription profiling assay that is performed using a very low amount (nanogram scale) of mRNA samples using Cap analysis gene expression (CAGE).	PMID:20543846	Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan._PMID:20543846	Philippe Rocca-Serra|Marcus Chibucos					subclass		transcription profiling assay									RNA extract	data item	gene expression		transcription profiling identification objective	
OBI:0001674	cap analysis of gene expression assay		ready for release	CAGE	A transcription profiling assay which measures RNA transcript abundances in biological samples by extracting 5' ends of capped transcripts, RTPCR and sequence those. Copy numbers of CAGE tags provide a way of quantification and provide a measure of expression of the transcriptome	PMID:14663149	5' end-centered expression profiling using cap-analysis gene expression and next-generation sequencing. PMID:22362160	Philippe Rocca-Serra|Marcus Chibucos					subclass	infer sequencing assay	transcription profiling assay	reverse transcribed polymerase chain reaction					DNA sequencer			RNA extract	sequence data	gene expression		transcription profiling identification objective	
OBI:0001679	yeast 2-hybrid assay		ready for release	Y2H	An assay that detects protein protein interactions and protein DNA interactions by testing for physical interactions (such as binding) between two proteins or a single protein and a DNA molecule, respectively. The premise behind the test is the activation of downstream reporter gene(s) by the binding of a transcription factor onto an upstream activating sequence (UAS). For two-hybrid screening, the transcription factor is split into two separate fragments, called the binding domain (BD) and activating domain (AD). The BD is the domain responsible for binding to the UAS and the AD is the domain responsible for the activation of transcription. The Y2H is thus a protein-fragment complementation assay.	url:https://en.wikipedia.org/wiki/Two-hybrid_screening	Strong FANCA/FANCG but weak FANCA/FANCC interaction in the yeast 2-hybrid system. PMID:10627486	Philippe Rocca-Serra|Marcus Chibucos					subclass		binding assay									genetically modified material	data item	protein domain specific binding		protein and DNA interaction identification objective	
OBI:0001680	Sos-recruitment assay		ready for release	SRS	A binding assay that detects interacting proteins for a targeted domain where mammalian guanyl nucleotide exchange factor (GEF) Sos is recruited to the Saccharomyces cerevisiae plasma membrane harboring a temperature-sensitive Ras GEF, Cdc25-2, allowing growth at the nonpermissive temperature using the Sos recruitment system, a kind of yeast 2 hybrid system.	PMID:9154808	The Sos-recruitment system as a tool to analyze cellular localization of plant proteins: membrane localization of Arabidopsis thaliana PEPINO/PASTICCINO2. PMID:20300944	Philippe Rocca-Serra|Marcus Chibucos					subclass		binding assay									genetically modified material	data item	protein domain specific binding		protein and DNA interaction identification objective	
OBI:0001681	yeast one-hybrid assay		ready for release	Y1H	An assay that determines protein DNA interactions using a single fusion protein in which the activating domain is linked directly to the binding domain.	PMID:22218861	Yeast one-hybrid assays for gene-centered human gene regulatory network mapping. PMID:22037702	Philippe Rocca-Serra|Marcus Chibucos					subclass		binding assay									genetically modified material	data item	sequence-specific DNA binding			
OBI:0001682	bacterial one-hybrid assay		ready for release	B1H	An assay that identifies the sequence-specific target site of a DNA-binding domain. In this system, a given transcription factor (TF) is expressed as a fusion to a subunit of RNA polymerase. In parallel, a library of randomized oligonucleotides representing potential TF target sequences, is cloned into a separate vector containing the selectable genes HIS3 and URA3. If the DNA-binding domain (bait) binds a potential DNA target site (prey) in vivo, it will recruit RNA polymerase to the promoter and activate transcription of the reporter genes in that clone. The two reporter genes, HIS3 and URA3, allow for positive and negative selections, respectively. At the end of the process, positive clones are sequenced and examined with motif-finding tools in order to resolve the favoured DNA target sequence	url:http://en.wikipedia.org/wiki/Bacterial_one-hybrid_system	A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system. PMID:18332042	Philippe Rocca-Serra|Marcus Chibucos					subclass		yeast one-hybrid assay									genetically modified material	data item	sequence-specific DNA binding		protein and DNA interaction identification objective	
OBI:0001683	chromosome organization assay by fluorescence in-situ hybridization		ready for release		An in-situ hybridization assay that uses fluorescence to detect chromosomal integrity		Duplication of intrachromosomal insertion segments 4q32__�q35 confirmed by comparative genomic hybridization and fluorescent in situ hybridization. PMID:22384449	Philippe Rocca-Serra|Marcus Chibucos				https://github.com/obi-ontology/obi/issues/788|	subclass		in-situ hybridization assay			('has part' some chromosome)						molecular label	data item	chromosome organization		biological feature identification objective	
OBI:0001684	methylation-specific polymerase chain reaction assay		ready for release	MSP	An assay that uses initial modification of DNA by sodium bisulfite, converting all unmethylated, but not methylated, cytosines to uracil, and subsequent amplification with primers specific for methylated versus unmethylated DNA.	PMID:8790415	Methylation status of breast cancer resistance protein detected by methylation-specific polymerase chain reaction analysis is correlated inversely with its expression in drug-resistant lung cancer cells. PMID:18219662	Philippe Rocca-Serra|Marcus Chibucos					subclass		assay					('deoxyribonucleotide' and ('has part' some 'methyl group'))					data item				
OBI:0001685	amplification of intermethylated sites assay		ready for release	AIMS assay|intermethylated site amplification	An assay that estimates genome-wide DNA methylation and measures methylation of DNA sequences. AIMS is based on the differential enzymatic digestion of genomic DNA with methylation-sensitive and methylation-insensitive isoschizomers followed by restrained PCR amplification of methylated sequences.	PMID:18987810	Analysis of DNA methylation by amplification of intermethylated sites (AIMS). PMID:18987810	Philippe Rocca-Serra|Marcus Chibucos					subclass		DNA methylation profiling assay					('deoxyribonucleotide' and ('has part' some 'methyl group'))				high molecular weight DNA extract	data item			epigenetic modification identification objective	
OBI:0001686	in-situ hybridization assay		ready for release	ISH|in situ hybridization	An assay that localizes a specific DNA or RNA sequence within a portion or section of tissue using artificially induced nucleic hybridization.	PMID:9021518	Use of in situ hybridization to examine gene expression in the embryonic, neonatal, and adult urogenital system. PMID:22639265	Philippe Rocca-Serra|Marcus Chibucos					subclass		assay	nucleic acid hybridization								labeled nucleic acid extract	data item	macromolecule localization		biological feature identification objective	
OBI:0001689	cytochalasin-induced inhibition of actin polymerization assay		ready for release		An assay which uses compound cytochalasin (CHEBI: 23528) to block actin polymerization-dependent cell motility (GO:0070358) and actin filament polymerization (GO:0030041).			Philippe Rocca-Serra|Marcus Chibucos					subclass		assay									cytochalasin	data item	actin filament polymerization		biological feature identification objective	
OBI:0001699	antibody cross-blocking assay			antibody inhibition of antibody binding	A competitive inhibition of binding assay in which two antibodies that are known to bind the same antigen are tested for the ability of one antibody to inhibit binding of the other antibody to the antigen, thereby determining if they have overlapping binding sites.	IEDB	Testing two antibodies that bind the HBV core protein for the ability of one antibody pre-incubated with the protein in solution to inhibit binding to the other antibody which is plate-bound in an ELISA format.	IEDB					subclass	logical definition is not capturing how the different antibodies are used in relation to each other.	competitive inhibition of binding assay			immunoglobulin complex, circulating						('immunoglobulin complex, circulating' and ('has role' some 'positive reference substance role'))					
OBI:0001700	immunoprecipitation assay				An analyte assay in which an input material is mixed with antibodies and bound antigen:antibody complexes are separated out using immunoprecipitation. Either the antibody has known specificy, and the antigen mixture is tested for the presence of a specific antigen, or the antigen solution is well defined and the antibody solution is tested for the presence of antigen specific antibodies.	IEDB	Determining if a cell is producing a protein using a protein specific antibody to immunoprecipitate the cell lysate. Determining if the serum of a patient contains antibodies against HBV core protein by immunoprecipitating purified HBV core protein with the patients serum.	IEDB					equivalent		analyte assay	immunoprecipitation						immunoglobulin complex, circulating							
OBI:0001848	chromatin interaction analysis by paired-end tag sequencing assay		metadata complete	ChIA-PET|ChIA-PET assay	An assay that incorporates chromatin immunoprecipitation (ChIP)-based enrichment, chromatin proximity ligation, Paired-End Tags, and high-throughput sequencing to determine de novo long-range chromatin interactions genome-wide.	url:http://en.wikipedia.org/wiki/ChIA-PET	Zhang, et al. ChIA-PET analysis of transcriptional chromatin interactions. Methods. 2012 Nov;58(3):289-99. [PMID:22926262]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		nuclear ligation assay	chromatin immunoprecipitation	sequencing assay|chromosome conformation capture assay	protein-containing complex			DNA sequencer				DNA sequence data			chromosome conformation identification objective	
OBI:0001849	structural analysis by paired-end tag sequencing assay		metadata complete	DNA-PET|DNA-PET assay	An assay that incorporates Paired-End Tags and sequencing technology to determine structural variants.	PMID:23029419	Yao, et al. Long Span DNA Paired-End-Tag (DNA-PET) Sequencing Strategy for the Interrogation of Genomic Structural Mutations and Fusion-Point-Guided Reconstruction of Amplicons. PLoS One. 2012;7(9):e46152 [PMID:23029419]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		DNA sequencing assay														
OBI:0001850	transcript analysis by paired-end tag sequencing assay		metadata complete	RNA-PET assay|RNA-PET	A transcription profiling assay that determines transcripts, gene structures, and gene expressions using Paired-End Tags and sequencing technology.	PMID:22113299	Ruan, et al. Genome wide full-length transcript analysis using 5' and 3' paired-end-tag next generation sequencing (RNA-PET). Methods Mol Biol. 2012;809:535-62. [PMID:22113299]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass	infer sequencing assay	transcription profiling assay	paired-end library preparation	RNA sequencing assay	RNA extract			DNA sequencer				DNA sequence data			transcription profiling identification objective	
OBI:0001853	DNase I hypersensitive sites sequencing assay		metadata complete		An assay that identifies the location of regulatory regions, based on the genome-wide sequencing of regions super sensitive to cleavage by DNase I.	url:http://en.wikipedia.org/wiki/DNase-Seq	Sabo, et al. Discovery of functional noncoding elements by digital analysis of chromatin structure. Proc Natl Acad Sci U S A. 2004 Nov 30;101(48):16837-42. [PMID:15550541]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		DNA sequencing assay	library preparation|non specific enzymatic cleavage	DNA sequencing assay	DNA extract			DNA sequencer				DNA sequence data			protein and DNA interaction identification objective	
OBI:0001857	RNP (ribonuclear particle) immunoprecipitation high- throughput sequencing assay		metadata complete	RIP-seq assay|RIP-seq	An analyte assay that combines immunoprecipitation of an RNA-binding protein and RNA-seq to identify mRNAs associated with selected RNA binding proteins (RBPs).	PMID:21172659	Zhao et al. Genome-wide identification of polycomb-associated RNAs by RIP-seq. Molecular Cell (2010) vol. 40 (6) pp. 939-53 [PMID:21172659]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass	infer sequencing assay	analyte assay	immunoprecipitation|library preparation|cross linking	RNA sequencing assay	protein-containing complex			DNA sequencer|sonicator				DNA sequence data			protein and RNA interaction identification objective	
OBI:0001858	cross-linking immunoprecipitation high-throughput sequencing assay		metadata complete	HITS-CLIP|CLIP-seq|CLIP-seq assay	An analyte assay that employs UV-crosslinking between RNA and a protein, followed by immunoprecipitation with antibodies for the protein, fragmentation, and high-throughput screening for RNA sequences that interact with a particular RNA-binding protein.	PMID:18978773	Heulga et al. Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins. Cell Rep. 2012 Feb 23;1(2):167-78. [PMID:22574288]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass	infer sequencing assay	analyte assay	immunoprecipitation|library preparation|cross linking	RNA sequencing assay	protein-containing complex			DNA sequencer				DNA sequence data			protein and RNA interaction identification objective	
OBI:0001859	formaldehyde-assisted isolation of regulatory elements assay		metadata complete	FAIRE-seq assay|FAIRE-seq	An assay to determine the sequences of those DNA regions in the genome associated with regulatory activity.	url:http://en.wikipedia.org/wiki/FAIRE-Seq	Giresi, et al. FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin. Genome Research 17 (6): 877_�_85. [PMID:17179217]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		sequencing assay	library preparation|cross linking	DNA sequencing assay	DNA extract							DNA sequence data	regulatory_region		protein and DNA interaction identification objective	
OBI:0001861	methylation-sensitive restriction enzyme sequencing assay		metadata complete	MRE-seq|MRE-seq assay	An assay that identifies unmethylated CpGs using methylation sensitive restriction enzymes to fragment DNA.	PMID:20613842	Maunakea et al. Conserved role of intragenic DNA methylation in regulating alternative promoters. Nature. 2010 Jul 8;466(7303):253-7. [PMID:20613842]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass	infer DNA sequencing assay	DNA methylation profiling by high throughput sequencing assay	library preparation|specific enzymatic cleavage	DNA sequencing assay	DNA extract		('deoxyribonucleotide' and ('has part' some 'methyl group'))	DNA sequencer				DNA sequence data			epigenetic modification identification objective	
OBI:0001862	reduced representation bisulfite sequencing assay		metadata complete	reduced representation bisulfite-seq|RRBS|RRBS assay	A bisulfite sequencing assay that identifies genomic methylation patterns using a bisulfite based protocol that enriches CG-rich parts of the genome.	PMC:1258174	Meissner et al. Reduced representation bisulfite sequencing for comparative high-resolution DNA methylation analysis. Nucleic Acids Res. 2005; 33(18): 5868_�_5877. [PMCID: PMC1258174]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		bisulfite sequencing assay	library preparation|specific enzymatic cleavage													
OBI:0001863	shotgun bisulfite-seq assay		metadata complete	WGBS|Shotgun bisulfite sequencing|whole genome bisulfite sequencing|WGSBS|whole-genome shotgun bisulfite sequencing	A bisulfite sequencing assay that identifies methylated cytosines across the genome using high throughput sequencing.	PMID:18278030	Cokus et al. Shotgun bisulfite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature. 2008 Mar 13;452(7184):215-9. [PMID:18278030].	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		bisulfite sequencing assay	library preparation					sonicator								
OBI:0001864	RNA Annotation and Mapping of Promoters for the Analysis of Gene Expression assay		metadata complete	RAMPAGE	An transcription profiling assay that identifies transcription start sites (TSS), the quantification of their expression and the characterization of their transcripts using high throughput sequencing.	PMID:22936248	Batut et al. High-fidelity promoter profiling reveals widespread alternative promoter usage and transposon-driven developmental gene expression. Genome Research. 2013 Jan;23(1):169-80. [PMID:22936248]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass	infer sequencing assay	transcription profiling assay	library preparation|non specific enzymatic cleavage	sequencing assay	RNA extract			DNA sequencer				DNA sequence data			transcription start site identification objective	
OBI:0001915	DNA replication timing by array assay		metadata complete	Repli-chip|Repli-chip assay	An assay which quantifies the timing of DNA replication as a function of genome position using array technology.	PMID:18842067	Hiranti et al. Global reorganization of replication domains during embryonic stem cell differentiation. PLoS Biol. 2008 October 7;6(10):e245 [PMID:18842067]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		assay	immunoprecipitation|library preparation|multiplex ligation-mediated amplification		DNA extract			flow cytometer sorter|DNA microarray			""5-bromo-2'-deoxyuridine""	measurement datum	DNA replication		DNA replication identification objective	
OBI:0001918	RNA-binding protein immunoprecipitation array profiling assay		metadata complete	RIP-chip assay|RIP-chip	An assay that combines immunoprecipitation of an RNA-binding protein and array technology to identify mRNAs associated with selected RNA binding proteins (RBPs).	PMID:21125495	Jain et al. RIP-Chip analysis: RNA-Binding Protein Immunoprecipitation-Microarray (Chip) Profiling. Methods Mol Biol. 2011;703:247-63. [PMID:21125495]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		analyte assay	immunoprecipitation|library preparation		protein-containing complex			DNA microarray				measurement datum			protein and RNA interaction identification objective	
OBI:0001919	Carbon-copy chromosome conformation capture assay		metadata complete	5C|5C assay	An assay that measures the organization of chromosomes at the genome-wide scale.	PMID:16954542	van Berkum et al. Determining spatial chromatin organization of large genomic regions using 5C technology. Methods Mol Biol (2009) vol. 567 pp. 189-213 [PMID:19588094]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		sequencing assay	immunoprecipitation|library preparation|multiplex ligation-mediated amplification|specific enzymatic cleavage	DNA sequencing assay	DNA extract			DNA sequencer				DNA sequence data			chromosome conformation identification objective	
OBI:0001920	DNA replication timing by sequencing assay		metadata complete	Repli-seq assay|Repli-seq	An assay in which timing of DNA replication is quantified as a function of genome position based on genome-wide sequencing.	PMID:19966280	Hansen et al. Sequencing newly replicated DNA reveals widespread plasticity in human replication timing. Proc Natl Acad Sci U S A. 2010 January 5; 107(1): 139_�_144. [PMID:19966280]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		sequencing assay	immunoprecipitation	DNA sequencing assay	DNA extract			flow cytometer sorter|DNA microarray			""5-bromo-2'-deoxyuridine""	DNA sequence data	DNA replication		DNA replication identification objective	
OBI:0001921	RNA-binding protein immunoprecipitation tiling array profiling assay		metadata complete		An RNA-binding protein immunoprecipitation array profiling assay that combines immunoprecipitation of an RNA-binding protein and RNA tiling array to identify mRNAs associated with selected RNA binding proteins (RBPs).	PMID:21125495	Jain et al. RIP-Chip analysis: RNA-Binding Protein Immunoprecipitation-Microarray (Chip) Profiling. Methods Mol Biol. 2011;703:247-63. [PMID:21125495]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		RNA-binding protein immunoprecipitation array profiling assay						tiling microarray								
OBI:0001922	microRNA profiling by high throughput sequencing assay		metadata complete	microRNA-seq assay|microRNA-seq|miRNA-seq|miRNA-HTS	A microRNA profiling assay that analyzes the microRNA component of the transcriptome using high throughput sequencing technology.	url:http://www.ebi.ac.uk/efo/EFO_0002896	Juhlia et al. MicroRNA expression profiling reveals miRNA families regulating_specific biological pathways in mouse frontal cortex and hippocampus. PLoS One. 2011;6(6). PMID: 21731767	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass	infer RNA-seq assay	microRNA profiling assay	library preparation	sequencing assay	RNA extract			DNA sequencer				measured expression level	miRNA			
OBI:0001923	protein sequencing by tandem mass spectrometry assay		metadata complete		A sequencing assay that detremines amino acid sequences of proteins using multiple rounds of mass spectrometry and molecule fragmentation.	PMID:3462691	Taylor et al.Implementation and uses of automated de novo peptide sequencing by tandem mass spectrometry. Anal Chem. 2001 Jun;73(11):2594-604. [PMID:11403305]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		sequencing assay	protease cleavage		protein			tandem mass spectrometer				sequence data				
OBI:0001924	micrococcal nuclease digestion followed by high throughput sequencing assay		metadata complete	MNase-seq assay|MNase-seq	An assay that identifies nucleosome positioning by genome wide sequencing of regions sensitive to digestion by micrococal nuclease	PMID:17038564	Cui et al.Genome-wide approaches to determining nucleosome occupancy in metazoans using MNase-Seq. Methods Mol Biol. 2012;833:413-9. [PMID:22183607]	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		sequencing assay	library preparation|non specific enzymatic cleavage		DNA extract			DNA sequencer				DNA sequence data			protein and DNA interaction identification objective	
OBI:0001925	chromatin immunoprecipitation with exonuclease sequencing assay		metadata complete	ChIP-exo assay	A ChIP-seq assay which uses immunoprecipitation to isolate protein bound DNA followed by an exonuclease step to degrade DNA that is not protein bound to provide greater resolution of the DNA binding site	PMID:22153082	Rhee et al. Comprehensive Genome-wide Protein-DNA Interactions Detected at Single-Nucleotide Resolution. Cell. 2011 Dec;147(6):1408-19. [PMID:22153082]	Venkat Malladi|Chris Stoeckert|Jie Zheng|Bjoern Peters					subclass		ChIP-seq assay	cross linking|specific enzymatic cleavage					sonicator				DNA sequence data				
OBI:0001926	microRNA profiling assay		metadata complete	microRNA expression assay|miRNA expression assay	A transcription profiling assay that quantifies the microRNA species within a biological sample.	PMID: 23382819		Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		transcription profiling assay			RNA extract							measured expression level	miRNA			
OBI:0001954	ChIP assay		ready for release	chromatin immunoprecipitation assay	An assay in which portions of chromatin, the ordered and organized complex of DNA and its interaction partners that make up a chormosome, is extracted and purified by immunoprecipitation with antibodies or tags, and subsequently analyzed	url:https://en.wikipedia.org/wiki/Chromatin_immunoprecipitation	PMID: 6379641	Philippe Rocca-Serra|Bjoern Peters					equivalent		assay	chromatin immunoprecipitation		('has part' some chromatin)										('epigenetic modification identification objective' or 'protein and DNA interaction identification objective')	
OBI:0001956	assay using chromatin immunoprecipitation		ready for release		An assay that produces data about protein-DNA interaction or DNA epigenetic modification using immunoprecipitation		http://www.lifetechnologies.com/uk/en/home/life-science/epigenetics-noncoding-rna-research/chromatin-remodeling/chromatin-immunoprecipitation-chip.html	Philippe Rocca-Serra				http://sourceforge.net/p/obi/obi-terms/707/	subclass		immunoprecipitation assay	chromatin immunoprecipitation												('epigenetic modification identification objective' or 'protein and DNA interaction identification objective')	
OBI:0001960	taxonomic diversity assessment by targeted gene survey		ready for release	targeted gene survey DNA barcoding|environmental gene survey|targeted gene survey	An assay that dteremines taxonomic and community diversity information by sequencing specific genomic regions used as marker of identity or diversity.	OBI	PMID:20679230|PMID:25367129	Philippe Rocca-Serra					equivalent		sequencing assay											population		biodiversity assessment objective	
OBI:0001976	hydrogen/deuterium exchange footprinting assay				A footprinting assay that uses a chemical reaction whereby a covalently bonded hydrogen atom is replaced by a deuterium atom, or vice versa in order to gather information about the solvent accessibility of parts of a molecule and thus its tertiary structure.	IEDB	Performing deuterium exchange on a protein by itself and in the presence of a binding partner, degrading the protein into peptide segments and identifying where deuterium exchange occurred by detecting the peptides in Mass Spectrometry. Peptides that have a modified deuteration pattern when the protein was bound to a partner are expected to be part of the binding interface.	IEDB					subclass	logical definition does not capture the exchange aspect	footprinting assay							deuterium atom							
OBI:0001977	cytometry assay				An assay that counts and/or measures characteristics of cells.	IEDB	An intracellular material detection by flow cytometry assay measuring peforin inside a culture of T cells.	IEDB					equivalent		assay			cell											
OBI:0001978	immunoblot assay				An analyte assay that detects specific molecules in an input material by separating it using gel electrophoresis, transfering the separated molecules to a membrane, and staining them with_ antibodies specific to the analyte molecules.	IEDB		IEDB					subclass	logical definition does not capture details of processing	analyte assay	electrophoresis				molecular entity	gel electrophoresis system								
OBI:0001979	fluorescence quenching binding assay				A binding assay in which the proximity of two entities is monitored by measuring a fluorescent signal of one of the entities that gets reduced if the two entities are cliose to each other.	IEDB		IEDB					subclass	logical definition does not capture quenching	binding assay		fluorescence detection assay												
OBI:0001980	in vivo intervention experiment				An assay in which the effect of a targeted process (the intervention) on an organism is tested.	IEDB	Comparing the level of allergy symptoms in humans before and post allergy immunotherapy. Testing if injection of a chemical compound into mice will lead to decreased survival.	IEDB	The intervention in an experiment should be modeled accordingly to the intevention carried out in a human cllinical trial, which is currently modeled as 'study intervention'. This touches the boundaries of study vs. assay.				subclass	logical definition does not capture intervention	assay			organism											
OBI:0001981	disease exacerbation in vivo intervention experiment				An in vivo intervention experiment that tests the ability of the intervention to increase the severity of a disease in the host.	IEDB	Injecting a set of mice with a peptide and measuring symtoms to determine if their disease course was more severe than the disease course of a set of mice that were not injected with the same peptide.	IEDB	Should have data about disease severity as readout; could just use disease for now				subclass	logical definition does not capture disease exacerbation	in vivo intervention experiment														
OBI:0001982	protection from challenge in vivo intervention experiment				An in vivo intervention experiment that tests the ability of the intervention to prevent occurrence of a disease in a host.	IEDB	Injecting a set of mice with a peptide and measuring symtoms to determine if their disease course was less severe than the disease course of a set of mice that were not injected with the same peptide.	IEDB	should have challenge as intervention				subclass	logical definition does not capture challenge	in vivo intervention experiment														
OBI:0001983	tolerance induction intervention experiment				An in vivo intervention experiment that tests the ability of the intervention to decrease an immune response.	IEDB	Injecting a set of mice with a Der p 2 peptide and measuring the IL-2 response of T cells from those mice when exposed to the Der p 2 protein in vitro to determine if those T cells made less IL-2 than cells taken from mice which were not injected with the same Der p 2 peptide.	IEDB	should have tolerance induction as intervention				subclass	logical definition does not capture tolerance induction	in vivo intervention experiment														
OBI:0001984	treatment intervention experiment				An in vivo intervention experiment in which the ability of the intervention to reduce or cure the effects of a disease are tested.	IEDB	Testing if administering oral histamine-blockers will reduce the number of emergency room visits in severely asthmatic individuals.	IEDB	should have treatment as intervention				subclass	logical definition does not capture treatment	in vivo intervention experiment														
OBI:0001985	microarray assay				An analyte assay where binding of the analyte to immobilized matrix is measured.	IEDB	Measuring if sera from an influenza A virus immunizedmouse binds to Hemagglutinin protein that is immobilized on a microarray.	IEDB					equivalent		analyte assay						microarray								
OBI:0001986	immunohistochemistry				An immunostaining assay to detect and potentially localize antigens within the cells of a tissue section.	IEDB	Staining a brain tissue sample from an Alzheimer's disease patient with antibodies to amyloid beta to identify amyloid plaques.	IEDB					equivalent		immuno staining assay			specimen from organism					material entity						
OBI:0002014	DNA methylation profiling by ChIP-chip assay			DNA methylation ChIP-chip	An epigenetic modification assay that identifies sites of DNA methylation using ChIP-chip technologies.	Penn group		Chris Stoeckert|Jie Zheng					subclass	infer chip-chip assay	epigenetic modification assay	chromatin immunoprecipitation	ChIP-chip assay	('has part' some chromatin)			DNA microarray							epigenetic modification identification objective	
OBI:0002015	transcription profiling by MPSS assay			expression MPSS	A transcription profiling assay that uses Massive Parallel Signature Sequencing (MPSS).	url:http://en.wikipedia.org/wiki/Massively_parallel_signature_sequencing		Chris Stoeckert|Jie Zheng					subclass		transcription profiling assay	library preparation	DNA sequencing assay				assay bead								
OBI:0002016	histone modification identification by ChIP-chip assay			histone modification ChIP-chip	An epigenetic modification assay that identifies regions containing specific histones and their modifications using ChIP-chip techniques.	Penn group		Chris Stoeckert|Jie Zheng					subclass	infer chip-chip assay	epigenetic modification assay	chromatin immunoprecipitation	ChIP-chip assay	('has part' some chromatin)			DNA microarray				information content entity			epigenetic modification identification objective	
OBI:0002017	histone modification identification by ChIP-Seq assay			histone modification ChIP-Seq	An epigenetic modification assay that identifies regions containing specific histones and their modifications using ChIP-Seq techniques.	Penn group		Chris Stoeckert|Jie Zheng					subclass	infer chip-seq assay	epigenetic modification assay	chromatin immunoprecipitation	ChIP-seq assay	('has part' some chromatin)			DNA sequencer				DNA sequence data			epigenetic modification identification objective	
OBI:0002018	transcription factor binding site identification by ChIP-chip assay			TF Binding ChIP-chip	A transcription factor binding site assay that utilizes ChIP-chip technology.	Penn group		Chris Stoeckert|Jie Zheng					subclass	infer chip-chip assay	transcription factor binding site assay	chromatin immunoprecipitation	ChIP-chip assay	('has part' some chromatin)			DNA microarray				information content entity	TF_binding_site		protein and DNA interaction identification objective	
OBI:0002019	transcription factor binding site identification by ChIP-Seq assay			TF Binding ChIP-Seq	A transcription factor binding site assay that utilizes ChIP-seq technology.	Penn group		Chris Stoeckert|Jie Zheng					subclass	infer chip-seq assay	transcription factor binding site assay	chromatin immunoprecipitation	ChIP-seq assay	('has part' some chromatin)			DNA sequencer				DNA sequence data	TF_binding_site		protein and DNA interaction identification objective	
OBI:0002020	epigenetic modification assay				An assay that identifies epigenetic modifications including histone modifications, open chromatin, and DNA methylation.	Penn group		Chris Stoeckert|Jie Zheng					equivalent		assay													epigenetic modification identification objective	
OBI:0002029	serial analysis of gene expression assay		metadata complete	SAGE	A transcription profiling assay that quantifies RNA through creating short signature tags of the messages and ligating them into a larger molecule than was sequenced.	PMID:7570003	PMID:15905473	Janos Demeter|Chris Stoeckert|Jie Zheng				https://sourceforge.net/p/obi/obi-terms/720/	subclass		transcription profiling assay	SAGE ditag library preparation	sequencing assay				DNA sequencer								
OBI:0002030	genotyping by tiling array assay		metadata complete	DNA sequence variation detection by tiling array	A genotyping by array assay that uses tiling array technology.	PMID:19521816	PMID:19521816	Janos Demeter|Chris Stoeckert|Jie Zheng				https://sourceforge.net/p/obi/obi-terms/720/	subclass		genotyping by array assay						tiling microarray								
OBI:0002031	genotyping by SNP array assay		metadata complete	DNA sequence variation detection by snp array	A genotyping by array assay that uses SNP array technology.	PMID:20393561	PMID:20080586	Janos Demeter|Chris Stoeckert|Jie Zheng				https://sourceforge.net/p/obi/obi-terms/720/	subclass		genotyping by array assay						SNP microarray								
OBI:0002032	parallel analysis of RNA structure assay			PARS	A single-nucleotide-resolution nucleic acid structure mapping assay that performs simultaneous in vitro profiling of the secondary structure of thousands of RNA species at single nucleotide resolution using enzymatic probing based on deep sequencing fragments of RNAs that were treated with structure-specific enzymes	PMID:20811459	pmid:20811459	Janos Demeter|Chris Stoeckert				https://sourceforge.net/p/obi/obi-terms/725/	subclass		single-nucleotide-resolution nucleic acid structure mapping assay using enzymatic probing			RNA extract				enzyme							
OBI:0002033	translation-associated transcript leader sequencing assay			TATL-seq	An RNA-seq assay that combines TL-seq with polysome fractionation	PMID:23580730	pmid:23580730	Janos Demeter|Chris Stoeckert				https://sourceforge.net/p/obi/obi-terms/725/	subclass		RNA-seq assay														
OBI:0002034	transcript leader sequencing assay			TL-seq	An RNA-seq assay that combines enzymatic capture of m(7)G-capped mRNA 5' ends with high-throughput sequencing.	PMID:23580730	pmid:23580730	Janos Demeter|Chris Stoeckert				https://sourceforge.net/p/obi/obi-terms/725/	subclass		RNA-seq assay														
OBI:0002035	peptide mass fingerprinting assay			protein fingerprinting|PMF	A mass spectrometry assay that measures the absolute mass of the cleaved peptides derived from an unknown protein of interest. These masses are then compared to values for known protein sequences to identify the unknown protein.	ERO:0001668|url:http://en.wikipedia.org/wiki/Peptide_mass_fingerprinting		Janos Demeter|Chris Stoeckert				https://sourceforge.net/p/obi/obi-terms/725/	subclass		mass spectrometry assay														
OBI:0002036	array based nucleic acid structure mapping assay				An assay which aims to provide information about the in vivo organization/structure of nucleic acids using chemical or enzymatic probes using a microarray.	OBI:0000870	pmid:23580730	Janos Demeter|Chris Stoeckert				https://sourceforge.net/p/obi/obi-terms/725/	subclass		assay														
OBI:0002037	micrococcal nuclease digestion followed by tiling array assay				An array based nucleic acid structure mapping assay that identifies nucleosome positions genome wide, by detection of regions protected by nucleosomes from digestion by micrococal nuclease using tiling array assays		pmid:17873876	Janos Demeter|Chris Stoeckert				https://sourceforge.net/p/obi/obi-terms/725/	subclass		array based nucleic acid structure mapping assay														
OBI:0002038	ribosomal profiling by sequencing assay			ribosomal profiling|Ribo-seq|Ribo-seq assay	A RNA-seq assay that sequences only mRNA protected by the ribosome during translation.	PMID:24468696	Aspden et al., (August 2014). ""Extensive translation of small open reading frames revealed by poly-ribo-seq."" eLIFE 2014;3:e03528	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		RNA-seq assay														
OBI:0002039	assay for transposase-accessible chromatin using sequencing			ATAC-seq|ATAC-seq assay	An assay to capture the location of open chromatin, DNA-binding proteins, individual nucleosomes and chromatin compaction at nucleotide resolution by Tn5 transposase insertion.	PMID:24097267	Kasinathan et al., (February 2014). ""High-resolution mapping of transcription factor binding sites on natitve chromatin."" Nat Methods 11(2):203-9. doi: 10.1038/nmeth.2766.	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		chromatin accessibility assay														
OBI:0002040	chromatin isolation by RNA purification sequencing assay			ChIRP-seq|Chromatin Isolation by RNA purification|ChIRP-seq assay	A detection of specific nucleic acids with complementary probes assay that measures regions of the genome which are bound by a specific RNA (or a by a ribonucleoprotein containing the RNA of interest) using high-throughput sequencing.	PMID:21963238	Csorba et al., (November 2014). ""Antisense COOLAIR mediates the coordinated switching of chromatin states at FLC during vernalization."" Proc Natl Acad Sci 111(45):16160-5. doi: 10.1073/pnas.1419030111.	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		detection of specific nucleic acid polymers with complementary probes		DNA sequencing assay												
OBI:0002041	self-transcribing active regulatory region sequencing assay			self-transcribing active regulatory region sequencing|STARR-seq assay|STARR-seq	An RNA-seq assay that identifies the sequences that act as transcriptional enhancers in a direct, quantitative, and genome-wide manner from sheared genomic DNA.	PMID:23328393	Bohla et al., (September 2014). ""A functional insulator screen identifies NURF and dREAM components to be required for enhancer-blocking."" PLoS One 9(9):e107765. doi: 10.1371/journal.pone.0107765.	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		RNA-seq assay														
OBI:0002042	carbon-copy chromosome conformation capture assay followed by sequencing assay			HiC|Carbon-copy chromosome conformation capture assay followed by sequencing|HiC assay	A carbon-copy chromosome conformation capture assay to analyze the organization of chromosomes in an unbiased, genome-wide manner using high throughput sequening following carbon-copy chromosome conformation capture.	PMID:19815776	Fudenberg et al., (November 2014). ""High order chromatin architecture shapes the landscape of chromosomal alterations in cancer."" Nat Biotechol 29(12):1109-13. doi: 10.1038/nbt.2049.	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		Carbon-copy chromosome conformation capture assay														
OBI:0002043	individual-nucleotide resolution cross-linking and immunoprecipitation sequencing assay			iCLIP assay|individual-nucleotide resolution cross-linking and immunoprecipitation|iCLIP	A cross-linking immunoprecipitation high-throughput sequencing assay that identifies protein-RNA interactions using UV light to covalently bind proteins and RNA molecules, allowing for a very stringent purification of the linked protein-RNA complexes.	doi:10.1016/j.ymeth.2013.10.011	Protein-RNA interactions: new genomic technologies and perspectives. Nature Reviews Genetics 13 (2): 77-83. doi:10.1038/nrg3141	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		cross-linking immunoprecipitation high-throughput sequencing assay														
OBI:0002044	RNA Bind-n-Seq assay			RNA Bind-n-Seq|RNBS assay|RBNS	An RNA-seq assay that comprehensively characterizes sequence and structural specificity of RNA binding proteins (RBPs).	doi: 10.1016/j.molcel.2014.04.016		Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		RNA-seq assay														
OBI:0002045	polyA-site sequencing assay			PAS-seq|PAS-seq assay|Poly(A)-site sequencing|poly(A)-site sequencing assay	A RNA-seq assay that quantitatively profiles RNA polyadenylation at the transcriptome level.	doi: 10.1261/rna.2581711	Wu et al., (July 2014). ""Genome-wide determination of poly(A) sites in Medicago truncatula: evolutionary conservation of alternative poly(A) site choice. BMC Genomics. 2014 Jul 21;15:615. doi: 10.1186/1471-2164-15-615.	Venkat Malladi|Chris Stoeckert|Jie Zheng					subclass		RNA-seq assay														
OBI:0002082	reporter gene assay		pending final vetting	reporter gene detection assay	An assay that detects expression of a reporter gene that was inserted under the control of a regulatory sequence of interest.	Paul D. Thomas, Yang Chai; FaceBase		Chris Stoeckert|Paul D. Thomas				https://github.com/obi-ontology/obi/issues/781	subclass		assay														
OBI:0002083	enhancer activity detection by reporter gene assay		pending final vetting	enhancer reporter gene assay	A reporter gene assay that detects expression of a reporter gene that was inserted under the control of an enhancer of interest.	FaceBase|PMID 24614317	PMID 19268701: ""we experimentally concatenated up to four enhancers from different genes and used a transgenic mouse assay to compare the in vivo activity of these compound elements with that of the single modules""	Paul D. Thomas|Yang Chai				https://github.com/obi-ontology/obi/issues/781	subclass		reporter gene assay														
OBI:0002084	transcription cofactor activity region identification by ChIP-Seq assay			chromatin modifier binding site identification by ChIP-Seq assay	A ChIP-seq assay that identifies regions of chromatin bound to a chromatin modifying protein, e.g. a histone acetyltransferase.	PMID:19212405	PMID 19212405: ""we present the results of chromatin immunoprecipitation with the enhancer-associated protein p300 followed by massively parallel sequencing, and map several thousand in vivo binding sites of p300 in mouse embryonic forebrain, midbrain and limb tissue""	Paul D. Thomas|Yang Chai				https://github.com/obi-ontology/obi/issues/782	subclass		ChIP-seq assay														
OBI:0002085	transcript expression location detection by hybridization chain reaction assay		pending final vetting	transcript expression location detection by fluorescent HCR.	An in situ hybridization assay in which the location (e.g. anatomical/tissue) of a transcript is detected by a multiplexed fluorescent in situ hybridization, based on orthogonal amplification with hybridization chain reactions (HCR). RNA probes complementary to mRNA targets trigger chain reactions in which fluorophore-labeled RNA hairpins self-assemble into tethered fluorescent amplification polymers.	PMID:21037591	PMID 25977364: ""Multiplexed imaging of mRNA expression using fluorescent hybridization chain reaction (HCR) quantitatively confirmed the expression profiles of lead cells""	Paul D. Thomas|Yang Chai				https://github.com/obi-ontology/obi/issues/783	subclass		in-situ hybridization assay														
OBI:0002086	Tet-assisted bisulfite sequencing assay		ready for release	TAB-seq|Tet-assisted bisulfite sequencing	A bisulfite sequencing assay that identifies genomic methylation patterns by using a bisulfite based protocol with the Tet enzyme to differentiate 5-hydroxylmethylcytosine (5hmC) from 5-methylcytosine (5mC) through a step-wise oxidative demethylation of 5mC, converting it to 5-carboxylcytosine (5caC) while keeping 5hmC protected.	PMID:23196972		Jason Hilton|Chris Stoeckert|Bjoern Peters|OBI				http://sourceforge.net/p/obi/obi-terms/789/	subclass		bisulfite sequencing assay														
OBI:0002094	MethylC-Capture sequencing assay		ready for release	Capture Methylome|MCC-Seq|MethylC-Capture Sequencing	A bisulfite sequencing assay in which a whole-genome sequencing library is prepared, bisulfite converted and amplified, followed by a capture enriching for targeted bisulfite-converted DNA fragments that are are subsequently identified by DNA sequencing.	PMID:26021296	MethylC-Capture Sequencing approach was introduced as a cost-effective and customizable alternative method for large-scale interrogation of functionally-active methylomes while simultaneously providing genetic variation information in a proof-of-concept epigenome-wide association study of 72 obese individuals, identifying novel disease-associated variants.	David Bujold|Chris Stoeckert					subclass		bisulfite sequencing assay														
OBI:0002106	carboxyfluorescein succinimidyl ester staining assay			CFSE assay	An assay using carboxyfluorescein succinimidyl ester staining.	IEDB	Measuring T cell proliferation based on the progressive halving of CFSE fluorescence within daughter cells following each cell division.	IEDB					equivalent		assay	carboxyfluorescein succinimidyl ester staining													
OBI:0002107	bio-layer interferometry assay			biolayer interferometry, BLI	A binding assay that detects a shift in the interference pattern reflected from a layer of immobilized material on the biosensor tip to measure binding to- or dissociating from the material on the biosensor.	IEDB	Detecting the presence of an antibody in a cell culture supernatant by detecting a shift in the interference pattern reflected from a layer of immobilized protein to which the antibody binds.	IEDB					subclass	logical definition does not capture shift in patter	binding assay														
OBI:0002108	small-angle scattering 3D molecular structure determination assay			SAXS	A 3D molecular structure determination assay in which the scattering pattern of a neutron or x-ray beam targeted at a material entity is recorded at small angles relative to the incident beam to determine the size, shape and structure of the material entity examined.	IEDB	Targeting a solution of antibody bound to a protein with a neutron beam to determine the binding site of the antibody on the protein	IEDB					subclass	logical definition does not capture neutrino beam	3D molecular structure determination assay														
OBI:0002111	enhanced cross-linking immunoprecipitation high-throughput sequencing assay		ready for release	eCLIP	An iCLIP assay that is enhanced to robustly identify protein-RNA interactions with high efficiency through improvements in library preparation of RNA fragments.	PMID:27018577		Jason Hilton|Chris Stoeckert					subclass		individual-nucleotide resolution cross-linking and immunoprecipitation sequencing assay														
OBI:0002112	small RNA sequencing assay		ready for release	short RNA-seq|small RNA-seq	An RNA-seq assay which is targeting small RNA (< 200 bp) sequences such as, but not exclusive to, miRNAs using, for example, small RNA library preparation kits.	url:http://science.sciencemag.org/content/316/5830/1484.full|url:http://www.illumina.com/techniques/sequencing/rna-sequencing/small-rna-seq.html		Jason Hilton|Mark A. Miller|Chris Stoeckert				https://github.com/obi-ontology/obi/issues/859	subclass		RNA-seq assay														
OBI:0002113	bromouridine labeling and sequencing assay		ready for release	Bru-seq	An RNA-seq assay to identify spans of nascent transcription in the genome through isolation of recent bromouridine (Bru) labelled RNAs.	PMC:4009065		Jason Hilton|Chris Stoeckert					subclass		RNA-seq assay														
OBI:0002114	bromouridine pulse-chase and sequencing assay		ready for release	BruChase-seq	An RNA-seq assay to identify RNA populations of specific ages through isolation of RNAs first labelled with bromouridine (Bru) followed by chasing in uridine for different periods of time.	PMC:4009065		Jason Hilton|Chris Stoeckert					subclass		RNA-seq assay														
OBI:0002115	cytometry time of flight assay			CyTOF|mass cytometry assay	A cytometry assay in which the presence of molecules of interest on or in cells is indicated by binding of antibodies labeled with rare earth element tags which are detected by time-of-flight mass spectrometry.	PMID:26190063	Whole human blood samples were incubated with lipopolysaccharide (LPS) to examine dose-dependent signaling responses within the toll-like receptor 4 (TLR4) pathway. After LPS stimulation, rare earth metal tagged antibodies against phenotypic markers were used to stain the blood sample (Nd143-CD45RA, Nd145-CD4, Er170-CD3, Sm152-TCR__, Pr141-CD7, Nd146-CD8, Nd142-CD19). A Fluidigm CyTOF version 1 instrument equipped with CyTOF software version 5.1.648 was used to measure and analyze the levels of antibody staining reflective of the level of expression of those surface receptors.	ImmPort					subclass	logical definition does not capture ""time of flight"" part	cytometry assay		mass spectrometry assay						rare earth metal atom						
OBI:0002116	high performance liquid chromotography assay			HPLC	An analytical chromatography assay that utilizes a high performance liquid chromatography instrument for separation of compounts in a solution.	PMID:9491555	On-line coupled immunoaffinity chromatography-reversed-phase high-performance liquid chromatography (IAC-HPLC) with detection by quadrupole ion trap mass spectrometry using a particle beam interface has been developed for the determination of the steroids, dexamethasone and flumethasone. HEMA (polyhydroxyethylmethacrylate) was evaluated as a support material for the anti-dexamethasone antibodies used in IAC. Antibody cross-reactivity and non-specific binding have been investigated for the HEMA bound anti-dexamethasone IAC column. The on-line IAC-HPLC-MS determination of dexamethasone and flumethasone in post-administration equine urine samples showed precisions (R.S.D.) of 8.0 and 7.1%, respectively, with limits of detection in the range 3-4 ng/ml.	ImmPort					equivalent		analytical chromatography						high performance liquid chromatography instrument								
OBI:0002117	whole genome sequencing assay			WGS	A DNA sequencing assay that intends to provide information about the sequence of an entire genome of an organism.	PMID:25827230|PMID:23095910	WGS permits comprehensive sequencing of introns and exons, whereas whole exome sequencing (WES) allows deeper sequencing of exonic regions at a lower cost. Due to the large number of genetic variants found in each genome, it is necessary to use filtering approaches to distinguish deleterious from benign variants. WES has been used successfully to identify novel genetic causes of primary immunodeficiency. Complex structural variations and non-Mendelian disorders remain challenges for WGS.	ImmPort	Genotyping assays should ideally identify which part of the genome the information is about. We do not currently have a good way to do this. That information should be added later.				subclass	logical definition does not capture what the output is about	DNA sequencing assay														
OBI:0002118	exome sequencing assay			WES	A DNA sequencing assay that intends to provide information about the sequence of the protein coding components of a genome (exons).	PMID:25827230	DNA was extracted from the Ficoll pellet of blood taken from congenital asplenia patients. Unamplified, high-molecular weight, RNase-treated genomic DNA (4_6 _g) was used for whole exome sequencing (WES) with the use of Agilent 71 Mb (V4 + UTR) singlesample capture and an Illumina HiSeq 2000. Sequencing was carried out so as to obtain 30_ coverage from 2 _ 100-bp paired-end reads. We used the Annovar tool (25) to annotate the resulting highquality (HQ) variants. In the regions targeted by WES capture (81.5% of the consensus coding genome), the mean numbers of single-nucleotide variants (SNVs) and small insertions/deletions (indels) detected per sample were 84,192 and13,325, respectively. After filtering, a mean of 74,398 (95.3%) high-quality (HQ) SNVs and 9,033 (70.6%) HQ indels were called. A mean of 105 coding HQ SNVs and 32 indels was identified.	ImmPort					subclass	logical definition does not capture exons	DNA sequencing assay														
OBI:0002119	microscopy assay				An imaging assay that utilizes a microscope to magnify features of the visualized material of interest that are not visible to naked eye.	PMID:21685355	Lung, liver, and spleen tissue samples were collected from female BALB/c mice and fixed in 100% formalin solution, embedded in paraffin, sectioned, and stained with hematoxylin and eosin. The stained samples were examined for signs of pathological changes under light microscopy.	ImmPort					equivalent		imaging assay						microscope								
OBI:0002120	mixed lymphocyte reaction assay			MLR	A cytometry assay where lymphocytes from two individuals are co-cultured with the lymphocytes from one of the allogeneic individuals (Responders) being labeled (with 3H Thymidine or BrdU) and the proliferation of the labeled cells is measured, which is thought to reflect recognition of histocompatibility antigens on the unlabeled cells (stimulators).	PMID:14969764	T cells were separated from PBL of laboratory volunteers and used as responder cells (R). Mitomycin C-treated allogeneic mAPC enriched populations were used as stimulators (S), incubated for 5 days, pulsed with 3H-thymidine (3H-TdR) for 16 hours, harvested, and radioactivity counted using a beta scintillation counter to measure proliferation of the 3H-thymidine labeled cells.	ImmPort					subclass	logical definition does not capture culturing	cytometry assay							molecular label							
OBI:0002121	killer cell immunoglobulin-like receptor typing assay			KIR typing	A genotyping assay in which the alleles of genes encoding for killer cell immunoglobulin-like receptors are determined.	PMID:21239231	DNA was isolated from PBMCs from healthy donors.The single-nucleotide polymorphism (SNP) assay was performed on an HT7900 Sequence Detection System (Applied Biosystems) following the allelic discrimination assay protocol provided by the manufacturer. Primers for the assay were designed in such a way that they amplified all the alleles of a particular HLA type (HLA-B or HLA-C) as well as the amplicon containing the polymorphic region of interest. Two probes were designed with a single mismatch between them. Each probe bound only one group of alleles and was labeled with either 6FAM or VIC fluorescent dye at its 5_ end. The 3_ end of the probes contained a quencher. For KIR2DL1 functional allele typing, the probe was designed based on a single-nucleotide mismatch at amino acid position 245 in the mature protein. A universal primer was designed that could specifically amplify all the alleles of KIR2DL1.The SNP assay was run on the HT7900 using the same protocol as described for KIR ligand typing. Results showed that 20 individuals had only arginine at amino acid position 245 of KIR2DL1, 5 were heterozygous for arginine and cysteine, and 1 had only cysteine in that position.Thus, this approach was useful not only for the identification of functional groups of KIR alleles, but also for determining the presence of the KIR gene itself.	ImmPort	Genotyping assays should ideally identify which part of the genome the information is about. We do not currently have a good way to do this. That information should be added later.				subclass	logical definition does not capture what part of the genome the output is about	genotyping assay														
OBI:0002122	major histocompatibility typing assay			MHC typing, HLA typing	A genotyping assay in which the alleles of genes encoding for major histocompatibility complex molecules are determined.	PMID:27516207|PMC:2628004	Blood samples from Holstein-Friesian heifer calves were used to isolate white blood cell (WBC) pellets, from which total RNA was extracted using Tri-reagent and cDNA generated using a Reverse Transcription Kit, both_ according to the manufacturers? instructions. An alignment of sequences of known bovine MHCI gene cDNAs, as presented in the IPD-MHC database (May 2014), was used to design a series of 3_ (for) and 5_ (rev) pan-MHCI primers. cDNA from individual animals was subject to PCR amplification in two separate reactions using either the For1/Rev2 or the For3/Rev1 primer pairs. For each sample primers using a unique combination of MID tags were used to allow subsequent de-multiplexing of the sequence data. PCRs were conducted using the Phusion High-Fidelity PCR kit. Following amplification, 5?_l of PCR products from each sample were pooled, purified using Agencourt AMPure XP Beads and run on a 1.5?% agarose gel. Bands of the appropriate size_ were extracted and purified using the Qiagen Gel extraction kit. Libraries were submitted to Edinburgh Genomics where after standard quality control procedures they underwent 300 base paired-end sequencing on an Illumina MiSeq v3. Data were separated into reads generated from For1Rev2 and For3Rev1 primer pairs, generating separate datasets for up to 192 samples. Within each sample, reads were clustered into unique variants which were subsequently compared using BLAST against a database of the previously identified bovine MHCI sequences. This process identified >140 novel classical MHCI genes and defined 62 novel MHCI haplotypes, dramatically expanding the known bovine MHCI repertoire.	IEDB	Genotyping assays should ideally identify which part of the genome the information is about. We do not currently have a good way to do this. That information should be added later.				subclass	logical definition does not capture what part of the genome the output is about	genotyping assay														
OBI:0002132	pulse stable isotope labeling by amino acids in cell culture			dynamic SILAC|pulse SILAC|pulsed SILAC	An assay that detects differences in protein abundance using samples that have been metabolically labeled in vivo with a stable non-radioactive heavy isotope containing amino acid for a short period of time. After diluting the pulsed cells into growth media without label, high resolution mass spectrometry-based proteomics is used to analyze the time-dependent decay and determine protein stability.	PMID:19053139|PMID:18954100		Rob Nash					subclass		assay														
OBI:0002140	temperature measurement assay		ready for release		An assay to determine the temperature of an evaluant.	OBI		Chris Stoeckert|Bjoern Peters					subclass		assay										('measurement datum' and ('has value specification' some 'temperature value specification'))				
OBI:0002141	volume measurement assay		ready for release		An assay to determine the volume of an evaluant.	OBI		Chris Stoeckert|Bjoern Peters					subclass		assay										('measurement datum' and ('has value specification' some 'volume value specification'))				
OBI:0002142	Nanostring nCounter miRNA expression assay		ready for release	microRNA counts	A microRNA profiling assay using digital molecular barcoding technology to quantify target microRNA molecules without the need for amplification.	PMID:26729350|url:http://www.nanostring.com/applications/technology		Jason Hilton|Chris Stoeckert			ENCODE DCC	https://github.com/obi-ontology/obi/issues/806	subclass		microRNA profiling assay														
OBI:0002143	bromouride labeling and sequencing after UV exposure		ready for release	BruUV-seq	An RNA-seq assay to identify transcription start sites and active enhancer elements through isolation of bromouridine (Bru) labelled RNAs after UV light exposure introduces transcription-blocking lesions.	PMC:4675984		Jason Hilton|Chris Stoeckert			ENCODE DCC	https://github.com/obi-ontology/obi/issues/827	subclass		RNA-seq assay														
OBI:0002144	extrachromosomal circular DNA sequencing assay		ready for release	eccDNA-seq|circulome-seq	An assay which aims at identifying the endogenous population of extrachromosomal circular DNA originating from a subset of genomic loci and potentially having profound consequences on the regulatory and coding capabilities of these regions. The assay includes creation of a library out of the circular DNA molecules and subsequent sequencing using parallelized sequencing methods.	url:http://biorxiv.org/content/early/2017/04/19/128686		Jason Hilton|Chris Stoeckert			ENCODE DCC	https://github.com/obi-ontology/obi/issues/830	subclass		DNA sequencing assay														
OBI:0002145	antigen specific antibodies assay				An analyte assay that measures the presence or amount of antibodies to a specified antigen.	OBI	Test performed using antibodies produced by human B-cells that bind with human immunodeficiency virus (HIV) antigens	Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		analyte assay														
OBI:0002146	HIV antibody assay			HIV I/II Ab assay	An antigen specific antibodies assay that is meant to detect antibodies that bind to human immunodeficiency virus (HIV) antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton	HIV-1 and HIV-2 are two different viruses (http://i-base.info/qa/36)		NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some ('Human immunodeficiency virus 1' or 'Human immunodeficiency virus 2')))									
OBI:0002147	HIV group O antibody assay			HIV I/II Plus O assay	An antigen specific antibodies assay that is meant to detect antibodies that bind to human immunodeficiency virus (HIV) group O antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton	https://www.cdc.gov/mmwr/preview/mmwrhtml/00042810.htm		NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some ('Human immunodeficiency virus 1' or 'Human immunodeficiency virus 2' or 'HIV-1 group O')))									
OBI:0002148	surface HBV antibody assay			HBsAb assay	An antigen specific antibodies assay that is meant to detect antibodies that bind to hepatitis B virus (HBV) surface antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'Hepatitis B virus'))									
OBI:0002149	core HBV antibody assay			HBcAb assay	An antigen specific antibodies assay that is meant to detect antibodies that bind to hepatitis B virus (HBV) core antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'Hepatitis B virus'))									
OBI:0002150	core HBV IgM antibody assay			HBcAb-IgM assay	An antigen specific antibodies assay that is meant to detectimmunoglobulin M (IgM) antibodies that bind to hepatitis B virus (HBV) core antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'Hepatitis B virus'))									
OBI:0002151	HCV antibody assay			HCV Ab assay	An antigen specific antibodies assay that is meant to detect antibodies that bind to Hepacivirus C (HCV) antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'Hepacivirus hominis'))									
OBI:0002152	EBV IgG antibody assay			EBV IgG Ab assay	An antigen specific antibodies assay that is meant to detect immunoglobulin G (IgG) antibodies that bind to Epstein-Barr virus (EBV) antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'human gammaherpesvirus 4'))									
OBI:0002153	EBV IgM antibody assay			EBV IgM Ab assay	An antigen specific antibodies assay that is meant to detect immunoglobulin M (IgM) antibodies that bind to Epstein-Barr virus (EBV) antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'human gammaherpesvirus 4'))									
OBI:0002154	CMV antibody assay			CMV Ab assay	An antigen specific antibodies assay that is meant to detect antibodies that bind to cytomegalovirus (CMV) antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		antigen specific antibodies assay					('immunoglobulin complex' and ('has disposition to bind' some 'Cytomegalovirus'))									
OBI:0002155	venereal disease research laboratory test			VDRL test	An analyte assay that is meant to detect general antibodies that react with substances that are produced by cellular damage caused by Treponema pallidum indicating a syphilis infection. VDRL tests require a microscope and can be done on cerebrospinal fluid as well as blood.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		analyte assay					immunoglobulin complex									
OBI:0002156	rapid plasma reagin test			RPR assay	An analyte assay that is meant to detect with the aid of carbon or charcoal particles general antibodies that react with substances that are produced by cellular damage caused by Treponema pallidum indicating a syphilis infection. RPR tests can be done without a microscope.	url:http://www.differencebetween.net/science/health/difference-between-vdlr-and-rpr/		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		analyte assay					immunoglobulin complex									
OBI:0002157	HBV surface antigen assay			HBsAg assay	An analyte assay that is meant to detect hepatitis B virus (HBV) surface antigens.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		analyte assay				Hepatitis B virus										
OBI:0002158	HIV-1 nucleic acid testing			HIV-1 NAT	An analyte assay that is meant to detect human immunodeficiency virus (HIV-1) nucleic acids.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		analyte assay					('nucleic acid' and ('part of' some 'Human immunodeficiency virus 1'))									
OBI:0002159	HCV nucleic acid testing			HCV NAT	An analyte assay that is meant to detect hepatitis C virus (HCV) nucleic acids.	OBI		Chris Stoeckert|Bjoern Peters|Randi Vita|James Overton			NCI BBRB	https://github.com/obi-ontology/obi/issues/825	subclass		analyte assay					('nucleic acid' and ('part of' some 'Hepacivirus hominis'))									
OBI:0002160	multiplexed indexed T7 ChIP-seq assay		ready for release	Mint-ChIP|Mint-ChIP-seq	A ChIP-seq assay which leverages T7 promoter amplification to allow low sample input and chromatin barcoding and pool-and-split multiplexing for high-throughput, quantitative profiling of chromatin states.	url:http://www.cell.com/molecular-cell/abstract/S1097-2765(15)00863-1		Jason Hilton|Chris Stoeckert			ENCODE DCC	https://github.com/obi-ontology/obi/issues/829	subclass		ChIP-seq assay														
OBI:0002161	systematic evolution of ligands by exponential enrichment assay			SELEX	A binding assay that identifies protein-binding sites on nucleic acids by selecting high-affinity target ligands from a randomized pool. The process is repeated in rounds, then the bound nucleic acids are separated from the unbound nucleic acids and amplified by PCR._	PMID:21720957		Rebecca Jackson					subclass		binding assay														
OBI:0002162	footprinting assay				An assay that measures ligand binding and conformational changes by the solvent accessibility of the backbone, bases, or side-chain structures of macromolecules through their sensitivity to chemical or enzymatic cleavage or modification reactions.	doi:10.1002/3527600906.mcb.200300025		Bjoern Peters					subclass		assay														
OBI:0002163	DNAse footprinting assay				An enzymatic footprinting assay that determines protein-binding sites on DNA by identifying bound fragments that are protected from DNAse I-catalyzed hydrolysis	OBI development call		Rebecca Jackson					subclass		footprinting assay														
OBI:0002164	mammalian 2-hybrid assay				A binding assay that increases the expression of a reporter gene in mammalian cells by proteins of interest attached to two portions of the transcriptional activator, bringing those portions closer together.	PMID:9043710|ECO:0001095		Rebecca Jackson					subclass		binding assay														
OBI:0002165	protein localization assay				An assay that determines the specific location of a protein. Subcellular localization is distinguished from tissue-based localization based on the type of microscopy applied.	OBI development call		Rebecca Jackson					subclass		assay														
OBI:0002166	tissue-based protein localization assay				A protein localization assay that determines the specific location of a protein in a living tissue sample.	PMID:14686950		Rebecca Jackson					subclass		protein localization assay														
OBI:0002167	subcellular protein localization assay				A protein localization assay that determines the specific subcellular location of a protein. The location is visualized through electron microscopy.	ECO		Rebecca Jackson					subclass		protein localization assay						electron microscope								
OBI:0002168	subcellular protein immunohistochemistry assay				An immunohistochemistry assay that uses antibodies to display the specific subcellular location of proteins.	ECO		Rebecca Jackson					subclass		immunohistochemistry														
OBI:0002169	ChIP-qPCR assay				A ChIP assay that uses quantitative PCR to determine levels of specific DNA in immunoprecipitated samples.	PMID:18388953		Chris Stoeckert					subclass		ChIP assay		real time polymerase chain reaction assay												
OBI:0002170	genomic SELEX				A systematic evolution of ligands by exponential enrichment assay that starts with a library derived from genomic DNA instead of synthetically derived random DNA molecules.	PMID:20541015		Chris Stoeckert					subclass		systematic evolution of ligands by exponential enrichment assay														
OBI:0002171	dot blot assay			dot blot analysis	An analyte assay that detects molecules in a mixture dotted on a membrane using DNA probes or antibodies.	PMID:10473518		Bjoern Peters					subclass		analyte assay														
OBI:0002172	Northwestern blot assay			Northwestern assay|Northwestern analysis	A direct binding assay that detects interactions of labeled RNA with immobilized protein on a membrane.	PMID:26965261		Bjoern Peters					subclass		direct binding assay														
OBI:0002173	Southwestern blot assay				A direct binding assay that detects interactions of labeled DNA with immobilized protein on a membrane.	PMID:26404144		Bjoern Peters					subclass		direct binding assay														
OBI:0002174	immunocytochemistry				An immuno staining assay in which samples of intact cells are examined that have had most, if not all, of their surrounding extracellular matrix removed			Bjoern Peters					subclass		immuno staining assay			cell											
OBI:0002175	ATP bioluminescence assay			ATP quantitation assay|cell viability ATP quantitation assay	An analyte assay that detects ATP concentration through light intensity when luciferase catalyzes the oxidation of luciferin in the presence of ATP, magnesium ions, and molecular oxygen.	ECO		Rebecca Jackson					subclass		analyte assay					ATP									
OBI:0002176	electrophysiology assay				An assay that measures the electrical properties of biological cells or tissues. Typically, this assay will generate measurements of voltage changes or electric current (or other associated variables such as impedence or capacitance).	url:https://en.wikipedia.org/wiki/Electrophysiology		Gully Burns	Note that electrophysiological manipulations also exist which involve processes that alter the electrophysiological properties of cells and tissues.				subclass		assay														
OBI:0002177	patch clamp assay				An intracellular electrophysiology assay where a glass micropipette is sealed to the surface of the cell membrane as a recording electrode to study ion channel activity. The key distinction of this technique is the electrical resistance of the seal between the cell membrane and the pipette is of the order 10-100 gigaohms, permitting high-resolution current measurements over the cell membrane in several different standard configurations.	url:https://en.wikipedia.org/wiki/Patch_clamp|url:http://www.annualreviews.org/doi/pdf/10.1146/annurev.ph.46.030184.002323|ECO:0006012		Gully Burns					subclass		intracellular electrophysiology recording assay						patch clamp device								
OBI:0002178	whole-cell patch clamp assay				A patch-clamp assay where the electrode is left in place on the cell, as in cell-attached recordings, but the membrane patch has been perforated, providing access from the interior of the pipette to the intracellular space of the cell. Measurements made with this technique involve recording currents through multiple channels simultaneously, over the membrane of the entire cell.	url:https://en.wikipedia.org/wiki/Patch_clamp#Whole-cell_recording_or_whole-cell_patch|ECO:0006015		Gully Burns					subclass		patch clamp assay						patch clamp device								
OBI:0002179	cell-attached patch clamp assay				A patch-clamp assay where the electrode is left in place on the cell, and the membrane patch has been left intact been perforated. This maintains the separation of the interior of the pipette to the intracellular space of the cell. Measurements made with this technique involve recording currents through multiple channels simultaneously, over the membrane of the entire cell.	url:https://en.wikipedia.org/wiki/Patch_clamp#Cell-attached_patch		Gully Burns					subclass		patch clamp assay						patch clamp device								
OBI:0002180	inside-out patch clamp assay				A patch-clamp assay where a patch of the membrane is attached to the patch pipette, detached from the rest of the cell, and the cytosolic surface of the membrane is exposed to the external media, or bath. This provides the experimenter has access to the intracellular surface of the membrane via the bath and can manipulate the environment at the intracellular surface of single ion channels. For example, channels that are activated by intracellular ligands can then be studied through a range of ligand concentrations.	url:https://en.wikipedia.org/wiki/Patch_clamp#Inside-out_patch|url:http://www.leica-microsystems.com/science-lab/the-patch-clamp-technique/		Gully Burns					subclass		patch clamp assay						patch clamp device								
OBI:0002181	outside-out patch clamp assay				A patch-clamp assay where a patch of the membrane is attached to the patch pipette. In this configuration, the external surface of the cell membrane is exposed as the outside of the membrane patch relative to the patch electrode. An outside-out patch starts with a gigaohm seal in a whole-cell recording configuration. The electrode is slowly withdrawn from the cell, until a fragment of membrane bulges away from the cell, which detaches and reforms as a convex membrane on the end of the electrode, with the original external surface of the membrane facing outward from the electrode. This provides the experimenter with access to the extracellular surface of the membrane via the bath and can manipulate the environment at the extracellular surface of single ion channels.	url:https://en.wikipedia.org/wiki/Patch_clamp#Outside-out_patch|url:http://www.leica-microsystems.com/science-lab/the-patch-clamp-technique/		Gully Burns					subclass		patch clamp assay						patch clamp device								
OBI:0002182	voltage clamp assay				An cellular electrophysiology assay where the membrane potential of a cell is controlled by the experimentalist. This is accomplished through a feedback mechanism where any change in membrane potential is countered by permitting electrical current to flow into or out of the cell.	url:https://en.wikipedia.org/wiki/Voltage_clamp		Gully Burns					subclass		intracellular electrophysiology recording assay						voltage clamp device								
OBI:0002183	two electrode voltage clamp assay			TEVC	The two electrode voltage clamp (TEVC) method utilizes two low-resistance pipettes, one sensing voltage and the other injecting current. The microelectrodes are filled with conductive solution and inserted into the cell to artificially control membrane potential. The membrane acts as a dielectric as well as a resistor, while the fluids on either side of the membrane function as capacitors.[9] The microelectrodes compare the membrane potential against a command voltage, giving an accurate reproduction of the currents flowing across the membrane. Current readings can be used to analyze the electrical response of the cell to different applications. This technique is mainly used in the Oocyte preparation.	url:https://en.wikipedia.org/wiki/Voltage_clamp#Two-electrode_voltage_clamp_using_microelectrodes		Gully Burns					subclass		voltage clamp assay						voltage clamp device								
OBI:0002184	cut open oocyte voltage clamp assay			COVG	The cut-open oocyte Vaseline gap (COVG) voltage-clamp technique is designed to solve weaknesses in the two elextrode voltage clamp by maximizing the benefits of the Xenopus oocyte expression system by improving on clamp speed, signal-to-noise ratio, and ability to effectively perfuse the oocyte. In this way, it was possible to combine the most popular transient expression system, and the associated benefits of molecular cloning and site-directed mutagenesis, with the superior voltage-clamp properties of cut-open cell techniques.	PMID:9711615		Gully Burns					subclass		voltage clamp assay						voltage clamp device								
OBI:0002185	current clamp assay				The current clamp technique records the membrane potential by injecting current into a cell through the recording electrode. Unlike in the voltage clamp mode, where the membrane potential is held at a level determined by the experimenter, in ""current clamp"" mode the membrane potential is free to vary, and the amplifier records whatever voltage the cell generates on its own or as a result of stimulation. This technique is used to study how a cell responds when electric current enters a cell; this is important for instance for understanding how neurons respond to neurotransmitters that act by opening membrane ion channels.	url:https://en.wikipedia.org/wiki/Electrophysiology#Current_clamp		Gully Burns					subclass		intracellular electrophysiology recording assay														
OBI:0002186	electroencephalography			EEG	An extracellular electrophysiology assay where electrodes are mounted outside the brain (either on the surface of the scalp on onto the brain surface itself during surgery) to measure the electrical field over the external surface.			Gully Burns					subclass		extracellular electrophysiology recording assay														
OBI:0002187	single-unit recording				An extracellular electrophysiology assay where a single microelectrode is placed in close proximity to a single neuron to measure voltage and current changes over time. This is the technicque used by Hubel and Wiesel to measure firing properties of primary visual cortex neurons in the 1950s in their original Nobel-prize winning study. A classic, old technique.	url:http://www.thieme.com/media/samples/pubid-80418214.pdf		Gully Burns	Can be used on any cell, not just neurons.				subclass		extracellular electrophysiology recording assay			neuron			micro electrode					action potential			
OBI:0002188	multi-unit recording				An extracellular electrophysiology assay where a collection of microelectrodes (often in an 'array' configuration) is placed into neural tissue to measure the distribution of voltage and current changes for a population of cells over time.			Gully Burns					subclass		extracellular electrophysiology recording assay														
OBI:0002189	local field potential recording				An extracellular electrophysiology assay where a microelectrode is placed in the extracellular space of brain tissue to measure action potential and compared to an electrode either outside or inside that tissue.	doi:10.1007/978-1-4614-7320-6_723-1		Gully Burns					subclass		extracellular electrophysiology recording assay			(tissue and ('located in' some brain))			micro electrode					action potential			
OBI:0002436	RNA interactome capture				An assay that identifies RNA binding proteins by cross-linking RNA and proteins with UV light, then purifying the bound complexes by oligo(dT) capture. Finally, the complexes are analyzed by mass spectrometry.	PMID:26463381		Rebecca Jackson					subclass		assay		mass spectrometry assay												
OBI:0002437	widefield microscopy assay			WFM	A fluorescence microscopy technique where the specimen under investigation is fully bathed in light, as opposed to confocal microscopy in which only a small portion of the specimen is illuminated.	url:http://bitesizebio.com/19409/the-many-flavors-of-widefield-microscopy/|url:https://svi.nl/WideFieldMicroscope		Jie Zheng					subclass		fluorescence microscopy assay														
OBI:0002438	nuclear ligation assay				An assay that detects the proximity of chromosomal DNA through the use of a ligation reaction in isolated nuclei.	PMID:8327891		Chris S					subclass		assay									DNA ligase				protein and DNA interaction identification objective	
OBI:0002439	chromosome conformation capture assay			3C assay	A nuclear ligation assay that detects chromosomal interactions between any two genomic loci. Chromatin segments are cross-linked, cut by restriction enzymes, ligated, and finally analyzed by PCR.	PMID:11847345|url:http://www.nature.com/nprot/journal/v2/n7/full/nprot.2007.243.html		Chris S					subclass		nuclear ligation assay													chromosome conformation identification objective	
OBI:0002440	Hi-C assay				A chromosome conformation capture assay that detects genome-wide chromosomal interactions. High-throughput techniques are used to sequence the ligated fragments after cross-linking and cutting with restriction enzymes.	PMID:20461051		Chris S					subclass		chromosome conformation capture assay		DNA sequencing assay												
OBI:0002441	physical examination of an organism				An assay that produces a description of the qualities of an organism that has not been transformed, through observation and physical, non-invasive techniques.								subclass		assay														
OBI:0002442	hydroxyl-radical footprinting assay				A footprinting assay that uses the reaction of hydroxyl radicals with side-chain sites in molecules (proteins, DNA, etc)_ with the resultant mass shift demonstrating the site of modification, used to_ to asses the accessibility of that site.	PMID:21770468		Jie Zheng					subclass		footprinting assay			molecular entity				oxygen radical							
OBI:0002443	methidiumpropyl-EDTA-iron(II) footprinting assay			MPE-Fe(II) footprinting	A footprinting assay that determines protein-binding sites on DNA by partial cleavage of ligand-protected DNA restriction fragments with methidium-propyl-EDTA (MPE). MPE-Fe(II) in the presence of oxygen efficiently catalyzes the non-specific clevage of DNA.	PMID:6225070|PMID:6435669		Jie Zheng					subclass		footprinting assay			DNA extract				EDTA methidiumpropylamide			binding datum				
OBI:0002445	transcription start site mapping by primer extension assay				A transcription profiling assay in which the transcription start site for a gene is determined by identifying the 5' end of mRNA. A radio-labeled primer is annealed to a complementary mRNA sequence near the 3' end, then cDNA is synthesized until the 5' end is reached.	PMID:23378648|url:https://en.wikipedia.org/wiki/Primer_extension		Rebecca Jackson					subclass		transcription profiling assay									RNA extract	sequence data	gene expression		transcription start site identification objective	
OBI:0002457	precision nuclear run-on sequencing assay			precision nuclear run-on and sequencing assay|PRO-Seq	An RNA-seq assay that maps the genome-wide distribution of transcriptionally-engaged Pol II at base-pair resolution by using biotin-labeled ribonucleotide triphosphate analogs (biotin-NTP) for nuclear run-on reactions, allowing the efficient affinity purification of nascent RNAs for high throughput sequencing from their 3' ends.	PMID:23430654		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/876	subclass		RNA-seq assay	reverse transcribed polymerase chain reaction													
OBI:0002458	chromosome conformation capture-on-chip assay			circularized chromosome conformation capture assay|4C assay	A nuclear ligation assay which uses cross-linking of proteins to proteins and DNA, followed by two rounds of digestion and ligation, inverse PCR, and characterization by microarray or DNA sequencing. This enables unbiased genome-wide screens for DNA contacts made by single genomic sites of interest.	url:http://www.sciencedirect.com/science/article/pii/B9780123919380000045		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/875	subclass		nuclear ligation assay	inverse polymerase chain reaction													
OBI:0002459	genotype phasing by Hi-C assay			haplotype reconstruction by Hi-C assay	A genotyping assay in which carbon-copy chromosome conformation is used to detect polymorphism in DNA samples.	PMID:19815776|url:https://www.nature.com/articles/nbt.2728		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/828	subclass		genotyping assay		Hi-C assay												
OBI:0002485	transcript analysis by single-end sequencing assay			transcript analysis by single-end sequencing	A sequencing assay that incorporates single-end reads and sequencing technology to determine transcripts, gene structures, and gene expressions.	url:https://www.illumina.com/science/technology/next-generation-sequencing/paired-end-vs-single-read-sequencing.html		Stephen A. Fisher|Junhyong Kim|Dan Berrios					subclass		sequencing assay														
OBI:0002489	differential medium assay				An organism detection assay that uses a differential medium to achieve its objective.	EuPathDB, https://www.uwyo.edu/molb2210_lab/info/biochemical_tests.htm		John Judkins					subclass		organism detection assay			specimen						specimen	data item				
OBI:0002564	histopathology assay				A histological assay that is intended to check for the presence or level of a specific disease.	OBI							subclass		histological assay														
OBI:0002571	polyA-selected RNA sequencing assay			mRNA-seq	An RNA-seq assay to study transcriptomes through the enrichment of polyadenylated transcripts or removal of ribosomal RNA prior to high-throughput sequencing.	url:https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-419		Jason Hilton|Mark A. Miller			ENCODE		subclass		RNA-seq assay									polyA RNA extract					
OBI:0002572	polyA-depleted RNA sequencing assay			polyA-depleted RNA-seq	An RNA-seq assay to study non-polyadenylated transcripts, such as, but not exclusive to unspliced and circular isoforms, through the depletion of polyadenylated transcripts prior to high-throughput sequencing.	url:http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0030733|url:http://www.tandfonline.com/doi/full/10.1080/15476286.2015.1110676		Jason Hilton|Mark A. Miller			ENCODE		subclass		RNA-seq assay									polyA depleted RNA extract					
OBI:0002575	isoform sequencing			ISO-seq	A method for sequencing isoforms by enriching a cDNA library for full-length reads spanning entire transcript isoforms.	url:http://www.pacb.com/blog/intro-to-iso-seq-method-full-leng/	Novel transcript forms were assessed by isoform sequencing.						subclass		RNA-seq assay														
OBI:0002597	chromosome conformation capture sequencing assay			3C-seq assay	A chromosome conformation capture-on-chip assay quantitates the products with multiplexed high-throughput sequencing.	PMID:23411633		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/939	subclass		chromosome conformation capture-on-chip assay			nucleic acid extract			nucleic acid sequencer				sequence data	region			
OBI:0002621	reconstitution assay		pending final vetting	reconstitution experiment	An assay in which a cellular process is replicated from the bottom-up using isolated components in order to observe how the components work together.	url:https://jcs.biologists.org/content/132/4/jcs227488	""In an attempt to define the mechanism of insulin-regulated glucose transporter 4 (Glut4) translocation, we have developed an in vitro reconstitution assay... insulin-induced Glut4 translocation can be reconstituted in vitro to a limited extent by using isolated membranes."" (PMID:10611313)	Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1059	subclass		assay										('is about' some 'cellular process')				(realizes some (concretizes some ('in vitro design' and 'molecular interaction identification design')))
OBI:0002622	in vitro transcription reconstitution assay		pending final vetting		A reconstitution assay in which RNA synthesis is investigated using RNA polymerase II transcription systems replicated in vitro from their base components.	PMID:9237163	An in vitro reconstituted mouse transcription system helped identify an NF-Y interacting promoter as essential for high-level expression from the R2 promoter. (PMID:11502214)	Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1059	subclass		reconstitution assay										('is about' some 'RNA-templated transcription')				
OBI:0002623	whole metagenome sequencing assay		pending final vetting	WMS	A DNA sequencing assay that intends to provide information on the DNA sequences of multiple genomes (a metagenome) from different organisms present in the same input sample.	Bjoern Peters|Michelle Giglio		Rebecca Jackson	Whole metagenome sequencing has been used to explore the composition and metabolic capability of communities of microbes found in the environment (e.g. in soil, water, etc.) and in humans and other species (e.g. in the gut, oral cavity, etc.).			https://github.com/obi-ontology/obi/issues/1056	subclass		DNA sequencing assay														
OBI:0002628	RNAi knockdown assay		pending final vetting	RNA interference knockdown assay|RNAi gene knockdown assay	A gene knockdown assay in which RNAi gene knockdown is used to disrupt gene transcripts.	Rebecca Jackson	""Here, we described the development of RNAi by micro-injection of double-stranded RNA (dsRNA) in the pea aphid Acyrthosiphon pisum. Injection of dsRNA into whole aphid body induced the silencing of two marker genes with different expression patterns: the ubiquitously expressed Ap-crt genes encoding a calreticulin and the gut specific Ap-cath-L gene encoding a cathepsin-L."" (PMID:17903251)	Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1057	subclass		gene knock-down assay	RNAi gene knockdown													
OBI:0002629	direct RNA sequencing assay		pending final vetting	direct RNA-seq|DRS	An assay to study transcription through direct RNA sequence determination, without prior conversion of RNA molecules to cDNA.	url:https://www.nature.com/articles/nature08390		Dan Berrios			jahilton	https://github.com/obi-ontology/obi/issues/874	subclass		RNA sequencing assay														
OBI:0002631	single-cell RNA sequencing assay		pending final vetting	scRNA-seq	An RNA sequencing assay that uses RNA extracts as input that can be traced to a single cell of origin.	Anna Maria Masci	Single-cell RNA sequencing (scRNA-seq) assays provide the expression profiles of individual cells.	Dan Berrios					subclass		RNA-seq assay														
OBI:0002647	Giemsa stain assay		metadata complete		An assay that uses a Giemsa stain to characterize cells.		Cytogenetics; the histopathological diagnosis of malaria and other parasites; differentiate nuclear and cytoplasmic morphology of the various blood cells like platelets, RBCs, WBCs	Jie Zheng|Chris Stoeckert			VEuPathDB	https://github.com/obi-ontology/obi/issues/1093	subclass		assay		imaging assay	cell			microscope								
OBI:0002649	blood microbiology assay				An organism detection assay that detects microorganisms in a blood specimen.			John Judkins				https://github.com/obi-ontology/obi/issues/1064	subclass		organism detection assay			blood specimen	organism					blood specimen	data item	organism			
OBI:0002675	massively parallel reporter assay		ready for release	MPRA	An assay in which multiplexing the construction and interrogation of larger libraries of reporter constructs allows measurement of the transcriptional regulatory activities of thousands to hundreds of thousands of DNA sequences.	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4364389/		Damion Dooley					subclass		reporter gene assay														
OBI:0002680	pseudovirus entry assay		ready for release	pseudotyped particle cell entry assay|pseudovirus cell entry|pseudotype entry|pseudotype cell entry	An assay that measures the entry in target cells of reporter viral particles that express an envelope protein of a different virus of interest.	Figure 1c in https://doi.org/10.1038/s41564-020-0688-y or Materials & Method in https://www.pnas.org/content/111/34/12516	“Inhibition of MERS-CoV-spike-mediated pseudovirus entry by the HKU4 S1 domain “ (from https://doi.org/10.1073/pnas.1405889111); “protease treatment did not enhance pseudotype entry in the absence of host receptor “; “bat-derived cell lines derived from other species were infected with VSV-reporter particles pseudotyped with chimeric spikes and luciferase was measured as readout for cell entry” (from https://doi.org/10.1038/s41564-020-0688-y) ; “teicoplanin could inhibit the entry of HIV-1-2019-nCoV-S pseudoviruses with the IC50 value of 1.66 uM” (from https://doi.org/10.1101/2020.02.05.935387)	Thomas Lemberger					subclass		infectious agent detection assay														
OBI:0002692	polymerase chain reaction assay		metadata complete		An assay that uses polymerase chain reaction technique to amplify DNA.	VEuPathDB		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	equivalent		assay	polymerase chain reaction													
OBI:0002693	restriction fragment length polymorphism assay		metadata complete	restriction fragment length polymorphism|RFLP|restriction fragment length polymorphism analysis	An assay that uses digestion of DNA with specific restriction enzymes followed by gel electropheresis to detect differences in the sizes of the generated fragments that are due to genetic differences (polymorphisms) in homologous sequences.	https://en.wikipedia.org/wiki/Restriction_fragment_length_polymorphism		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		assay	DNA restriction enzyme digestion		DNA extract			gel electrophoresis system	restriction enzyme							
OBI:0002694	DNA fingerprinting assay		metadata complete	DNA profiling|DNA fingerprinting|DNA fingerprint|DNA finger printing	An assay to identify a specific individual organism from a DNA specimen by looking at unique patterns in their DNA.	VEuPathDB		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		assay			DNA extract											
OBI:0002695	insecticide resistance assay		metadata complete	resistance identification/monitoring	An assay that aims to detect the presence and/or frequency of resistance to insecticides in an organism or organism population.	MIRO:20000001		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	equivalent		assay													insecticide resistance detection objective	
OBI:0002696	insecticide resistance by monitoring known mutations assay		metadata complete	monitoring known mutations	An insecticide resistance assay that detects, in a population, presence and frequency of mutant alleles for previously characterized mutations with insecticide resistance phenotypes.	MIRO:20000096		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance assay													insecticide resistance detection objective	
OBI:0002697	insecticide resistance by detecting enzyme activity assay		metadata complete	metabolic resistance assay	An insecticide resistance assay that is based on determination the catalytic activity of an enzyme associated with insecticide resistance phenotypes.	MIRO:20000003		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance assay											catalytic activity		insecticide resistance detection objective	
OBI:0002698	insecticide resistance bioassay		metadata complete	bioassay	An insecticide resistance assay that is typically conducted to measure the effects of a substance on a living organism.	MIRO:20000058		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance assay													insecticide resistance detection objective	
OBI:0002699	insecticide resistance by detecting alpha esterase activity assay		metadata complete	alpha esterase activity assay	An insecticide resistance by detecting enzyme activity assay that measures activity of alpha esterase.	IRO:0000149		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by detecting enzyme activity assay											hydrolase activity, acting on ester bonds		insecticide resistance detection objective	
OBI:0002700	insecticide resistance by detecting beta esterase activity assay		metadata complete	beta esterase activity assay	An insecticide resistance by detecting enzyme activity assay that measures activity of beta esterase.	IRO:0000150		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by detecting enzyme activity assay											hydrolase activity, acting on ester bonds		insecticide resistance detection objective	
OBI:0002701	insecticide resistance by detecting acetylcholinesterase activity assay		metadata complete	acetylcholinesterase assay|AChE activity assay|AChE assay	An insecticide resistance by detecting enzyme activity assay that measures activity of acetylcholinesterase.	MIRO:20000084|MIRO:20000010|MIRO:20000086		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by detecting enzyme activity assay											acetylcholinesterase activity		insecticide resistance detection objective	
OBI:0002702	insecticide resistance by detecting glutathione S-transferase activity assay		metadata complete	GST related assay	An insecticide resistance by detecting enzyme activity assay that measures activity of glutathione S-transferase (GST).	MIRO:20000083		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by detecting enzyme activity assay											glutathione transferase activity		insecticide resistance detection objective	
OBI:0002703	insecticide resistance by detecting carboxylic ester hydrolase activity assay		metadata complete	pNPA assay	An insecticide resistance by detecting enzyme activity assay that measures activity of carboxylic ester hydrolase using p-nitrophenyl acetate as a substrate.	MIRO:20000019		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by detecting enzyme activity assay											carboxylic ester hydrolase activity		insecticide resistance detection objective	
OBI:0002704	insecticide resistance by detecting mixed-function oxidase assay		metadata complete	mixed-function oxidase assay	An insecticide resistance by detecting enzyme activity assay that measures whether mixed-function oxidase activity present.	MIRO:20000062		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by detecting enzyme activity assay													insecticide resistance detection objective	
OBI:0002705	direct insecticide resistance bioassay		metadata complete	direct bioassay	An insecticide resistance bioassay without the use of any synergist.	MIRO:20000044		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance bioassay													insecticide resistance detection objective	
OBI:0002706	topical application insecticide resistance bioassay		metadata complete	topical application assay	An insecticide resistance bioassay by adding insecticide directly to the thorax of the insect.	IRO:0000155		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance bioassay													insecticide resistance detection objective	
OBI:0002707	direct insecticide resistance diagnostic assay		metadata complete	diagnostic test	A direct insecticide resistance assay that at preset insecticide dosage scoring mortality to determine resistance of a population.	MIRO:20000075		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance bioassay													insecticide resistance detection objective	
OBI:0002708	insecticide resistance dose response assay		metadata complete	dose response test	A direct insecticide resistance assay in which an insect population is exposed to a range of insecticide dosage scoring mortality to determine resistance.	MIRO:20000076		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance bioassay													insecticide resistance detection objective	
OBI:0002709	insecticide resistance time response assay		metadata complete	time response test	A direct insecticide resistance assay to determine resistance as a consequence of the time of exposure to insecticide.	MIRO:20000013		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance bioassay													insecticide resistance detection objective	
OBI:0002710	Centre for Disease Control and Prevention bottle bioassay		metadata complete	CDC bottle bioassay	A direct insecticide resistance diagnostic assay performs in a glass bottle coated with insecticides for detecting resistance to insecticides in vector populations.	MIRO:20000009		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance diagnostic assay						glass bottle coated with insecticides							insecticide resistance detection objective	
OBI:0002711	WHO cone kit diagnostic assay		metadata complete	cone DT	A direct insecticide resistance diagnostic assay uses WHO cone kit.	MIRO:20000039		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance diagnostic assay													insecticide resistance detection objective	
OBI:0002712	WHO paper kit diagnostic assay		metadata complete	WHO paper kit DT	A direct insecticide resistance diagnostic assay uses WHO paper kit.	MIRO:20000041		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance diagnostic assay													insecticide resistance detection objective	
OBI:0002713	WHO larvicide diagnostic assay		metadata complete	WHO larvicide DT	A direct insecticide resistance diagnostic assay tests survival of larvae in a medium supplemented with insecticide.	MIRO:20000049		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		direct insecticide resistance diagnostic assay													insecticide resistance detection objective	
OBI:0002714	insecticide resistance dose response by bottle assay		metadata complete	bottle bioassay DR test	An insecticide resistance dose response assay that performs in a glass bottle coated with insecticides.	MIRO:20000011		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance dose response assay						glass bottle coated with insecticides							insecticide resistance detection objective	
OBI:0002715	insecticide resistance dose response by survival of larvae assay		metadata complete	WHO larvicide DR test	An insecticide resistance dose response assay that tests survival of larvae in a medium supplemented with insecticide.	MIRO:20000050		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance dose response assay													insecticide resistance detection objective	
OBI:0002716	insecticide resistance dose response by WHO paper kit assay		metadata complete	WHO paper kit DR test	An insecticide resistance dose response assay using WHO paper kit.	MIRO:20000048		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance dose response assay													insecticide resistance detection objective	
OBI:0002717	insecticide resistance time response by bottle assay		metadata complete	bottle bioassay TR test	An insecticide resistance time response assay that is performed in a glass bottle coated with insecticides, with the presence of a synergist.	MIRO:20000030		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance time response assay						glass bottle coated with insecticides							insecticide resistance detection objective	
OBI:0002718	insecticide resistance time response by WHO paper kit assay		metadata complete	WHO paper kit TR test	An insecticide resistance time response assay using WHO paper kit, with the presence of a synergist.	MIRO:20000036		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance time response assay													insecticide resistance detection objective	
OBI:0002719	insecticide resistance by amplification refractory mutation system assay		metadata complete	Amplification Refractory Mutation System|ARMS	An insecticide resistance by monitoring known mutations assay that detects any mutation involving single base changes or small deletions using amplification refractory mutation system (ARMS). The ARMS is based on the use of sequence-specific PCR primers that allow amplification of test DNA only when the target allele is contained within the sample. Following an ARMS reaction the presence or absence of a PCR product is diagnostic for the presence or absence of the target allele. It can be used to analyze human genomic DNA for one or more mutations.	PMID: 18428319|IRO:0000006		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	polymerase chain reaction		DNA extract										insecticide resistance detection objective	
OBI:0002720	insecticide resistance by primer introduced restriction analysis PCR assay		metadata complete	Primer Introduced Restriction Analysis PCR|PIRA-PCR|polymerase chain reaction-primer-introduced restriction analysis	An insecticide resistance by monitoring known mutations assay that detects Single Nucleotide Polymorphisms (SNPs) using PCR technique and mismatched primers that is close to the mutation of interest and digested the PCR productions using restriction enzymes.	PMID: 8339229|IRO:0000007		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	polymerase chain reaction|specific enzymatic cleavage		DNA extract										insecticide resistance detection objective	
OBI:0002721	insecticide resistance by nested polymerase chain reaction assay		metadata complete	gene mutation detection by nested PCR	An insecticide resistance by monitoring known mutations assay that detects gene mutation based on nested polymerase chain reaction technique.	IRO:0000127		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	nested polymerase chain reaction		DNA extract										insecticide resistance detection objective	
OBI:0002722	insecticide resistance by ligase detection reaction assay		metadata complete		An insecticide resistance assay that is based on monitoring known mutations using ligase detection reaction exquisitely discriminate between a mismatched and complementary DNA helix.	MIRO:20000103		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	ligase detection reaction		DNA extract										insecticide resistance detection objective	
OBI:0002723	insecticide resistance by ligase detection reaction-fluorescent microsphere assay		metadata complete	gene mutation detection by LDR-FMA|ligase detection reaction-fluorescent microsphere assay	An insecticide resistance by ligase detection reaction assay that uses fluorescently labeled conserved probes in ligase detection reaction.	IRO:0000151		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by ligase detection reaction assay	ligase detection reaction		DNA extract										insecticide resistance detection objective	
OBI:0002724	insecticide resistance by PCR amplification of specific alleles assay		metadata complete	PASA|PCR amplification of specific alleles|allele-specific amplification and amplification refractory mutation system	An insecticide resistance assay that is based on monitoring known mutations by PCR amplification of specific alleles to detect polymorphic or mutant alleles.	PMID: 1734929		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	polymerase chain reaction		DNA extract										insecticide resistance detection objective	
OBI:0002725	insecticide resistance by fluorogenic PCR assay		metadata complete		An insecticide resistance assay that is based on monitoring known mutations by PCR technique that uses target specific probes labeled with fluorogenic chromophores to detect gene mutation.	MIRO:20000102		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	polymerase chain reaction		DNA extract										insecticide resistance detection objective	
OBI:0002726	insecticide resistance by PCR-RFLP assay		metadata complete	PCR-RFLP	An insecticide resistance by monitoring known mutations assay based on restriction fragment length polymorphism assay.	MIRO:20000113		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	polymerase chain reaction	restriction fragment length polymorphism assay	DNA extract										insecticide resistance detection objective	
OBI:0002727	insecticide resistance by short interspersed elements PCR assay		metadata complete	Short Interspersed Elements PCR	An insecticide resistance assay that is based on monitoring known mutations by PCR amplification of short interspersed elements (SINEs).	IRO:0000013		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		insecticide resistance by monitoring known mutations assay	polymerase chain reaction		DNA extract										insecticide resistance detection objective	
OBI:0002728	pathogen detection assay		metadata complete	pathogen detection method	An organism detection assay that detects pathogens.	IRO:0000137		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	equivalent		organism detection assay											pathogen		detection of pathogenic organisms objective	
OBI:0002729	VectorTest assay		metadata complete	VectorTest	A pathogen detection assay that identifies the presence or absence of specific peptide epitopes of circumsporozoite (CS) protein of the most important Plasmodium falciparum and two strains (variants 210 and 247) of the more widespread Plasmodium vivax using a dipstick wicking test strip.	IRO:0000138		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		pathogen detection assay											pathogen		detection of pathogenic organisms objective	
OBI:0002730	pathogen detection by Rapid Analyte Measurement Platform assay		metadata complete	Rapid Analyte Measurement Platform	A pathogen detection assay that is based on Rapid Analyte Measurement Platform (RAMP) technology to quantify immunologically active substances.	IRO:0000164		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		pathogen detection assay											pathogen		detection of pathogenic organisms objective	
OBI:0002731	pathogen detection by loop-mediated isothermal amplification assay		metadata complete	Loop-mediated isothermal amplification	A pathogen detection assay that is based on loop-mediated isothermal amplification.	IRO:0000165		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		pathogen detection assay	loop-mediated isothermal amplification										pathogen		detection of pathogenic organisms objective	
OBI:0002732	blood meal assay		metadata complete	blood meal analysis	An assay that analyzes the specimen taken from blood meal fed organism, such as insect.	IRO:0000135		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	equivalent		assay									arthropod meal of blood specimen					
OBI:0002733	blood meal by counter current immunoelectrophoresis assay		metadata complete	countercurrent immunoelectrophoresis|CIE	A blood meal assay that uses a counter current immunoelectrophoresis technique.	IRO:0000136		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		blood meal assay	counter current immunoelectrophoresis								arthropod meal of blood specimen					
OBI:0002734	DNA based blood meal finger printing assay		metadata complete	DNA based blood meal finger printing	A DNA fingerprinting assay that uses DNA extracted from blood meal fed organism, such as insect.	VEuPathDB|VSMO:0001307		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		DNA fingerprinting assay			DNA extract						arthropod meal of blood specimen					
OBI:0002735	organism detection by size assay		metadata complete	by size	An organism detection assay that is based on the size of organism.	IRO:0000145		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay														
OBI:0002736	organism detection by cross mating assay		metadata complete	cross mating experiment	An organism detection assay that is based on genetic crossings between specimens collected in the field to determine whether fertile progeny is produced.	MIRO:30000036		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay														
OBI:0002737	organism detection by cytological chromosome examination assay		metadata complete	cytological chromosome examination	An organism detection assay that is based on analysis of polytene chromosomes through cytological examination of the banding pattern of the species.	MIRO:30000037		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay														
OBI:0002738	organism detection by isoenzyme electrophoresis assay		metadata complete	isoenzyme electrophoresis	An organism detection assay that is based on electrophoresis to determine the isozymes that are present in a specific population to determine the species.	MIRO:30000038		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay	electrophoresis													
OBI:0002739	organism detection by morphological examination assay		metadata complete	morphological examination	An organism detection assay that is based on examination of morphology and the use of specific taxonomic keys to determine the species of the specimen.	MIRO:30000039		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay														
OBI:0002740	organism detection by PCR assay		metadata complete	PCR-based species identification	An organism detection assay that is based on PCR.	MIRO:30000040		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay	polymerase chain reaction													
OBI:0002741	organism detection by specific DNA hybridization assay		metadata complete	species specific DNA hybridization	An organism detection assay that is based on DNA hybrdization.	MIRO:30000041		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay	nucleic acid hybridization													
OBI:0002742	organism detection by salinity tolerance assay		metadata complete	salinity tolerance tests	An organism detection assay of mosquito species that is on the basis of mosquito survival depending on the salt concentration in the water used to lay their eggs to differentiate between morphologically very similar species.	MIRO:30000042		VEuPathDB			VEuPathDB	https://github.com/obi-ontology/obi/issues/1117	subclass		organism detection assay														
OBI:0002753	PRO-cap			PRO-CAP	Precision nuclear run-on and sequencing to detect Pol II initiation sites			Bonita Lam				https://github.com/obi-ontology/obi/issues/1102	subclass		RNA sequencing assay	reverse transcribed polymerase chain reaction													
OBI:0002759	ribosomal RNA-depleted RNA sequencing assay			rRNA-deleted RNA sequencing assay	An RNA-seq assay in which highly abundant ribosomal RNAs are removed from total RNA before sequencing, resulting in more efficient transcript/gene detection.	PMID:29556074		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		RNA-seq assay									ribosomal RNA-depleted RNA extract				transcription profiling identification objective	
OBI:0002760	metatranscriptome sequencing assay				An RNA-seq assay that determines the RNA sequence of microbial transcripts from a microbioal community of mixed species from a given microbiome.	PMID:31450270		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		RNA-seq assay													transcription profiling identification objective	
OBI:0002761	lipid profiling assay			lipidomic assay	An analyte assay assay that detects and identifies lipids resulting from biochemical and cellular metabolism.	OBI metabolite profiling assay		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		analyte assay														
OBI:0002762	single-nucleus ATAC-seq			snATAC-seq	An ATAC-seq assay in which single nuclei are isolated from frozen tissue samples, through a protocol designed to maximally preserve nucleus integrity during sample processing and optimize transposase-mediated fragmentation of chromatin in individual nuclei.	http://www.biorxiv.org/content/early/2017/07/06/159137	snATAC-seq can be used to dissect heterogeneity and delineate gene regulatory sequences in complex tissues, and uncover both the cell types and the regulatory elements in each cell type without prior knowledge.	Mark Andrew Miller, ORCID:0000-0001-9076-6066			ENCODE	https://github.com/obi-ontology/obi/issues/864	subclass		assay for transposase-accessible chromatin using sequencing														
OBI:0002763	16s ribosomal gene sequencing assay			16S rRNA sequencing assay	An amplicon sequencing assay in which the amplicon is derived from universal primers used to amplify the 16S ribosomal RNA gene from isolate bacterial genomic DNA or metagenomic DNA from a microbioal community. Resulting sequences are compared to reference 16S sequence databases to identify or classify bacteria present within a given sample.	PMID:31450270		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		amplicon sequencing assay											population		biodiversity assessment objective	
OBI:0002764	single-cell ATAC-seq			scATAC-seq	An ATAC assay designed to robustly map the accessible genome of individual cells, using sequencing integrated into a programmable microfluidics platform, in order to provide insights into cell-to-cell variation in accessibility profiles.	http://www.nature.com/nature/journal/v523/n7561/full/nature14590.html		Mark Andrew Miller, ORCID:0000-0001-9076-6066			ENCODE	https://github.com/obi-ontology/obi/issues/864	subclass		assay for transposase-accessible chromatin using sequencing														
OBI:0002765	microbiome protein expression profiling assay			metaproteomic assay	A protein expression profiling assay of microbial proteins extracted from a microbioal community of mixed species from a given microbiome.	PMID:31450270		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		protein expression profiling assay			(specimen and ('has part' some protein))											
OBI:0002766	cytokine assay				An analyte assay to study presence, concentration, or amount of cytokines.	PMID:23603216		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		analyte assay														
OBI:0002767	amplicon sequencing assay				A sequencing assay in which a DNA or RNA input molecule is amplified by PCR and the product sequenced.	PMID:29628929|PMID:31450270		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		sequencing assay			nucleic acid extract			nucleic acid sequencer								
OBI:0002768	whole virome sequencing assay				A whole metagenome sequencing assay that intends to provide information on multiple genome sequences from different viruses present in the same input sample.	OBI:0002623		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE		subclass		whole metagenome sequencing assay														
OBI:0002773	single-value binding of antibody with reporter to antigen assay			immunoassay|IA	An assay that detects the linking of antigens and antibodies via special signaling mechanisms, such as EIA, ELISA, chemiluminescence, etc. that produces one measure (quantitative or qualitative) of the analyte of interest	LOINC User's Guide, Version 2.68, PUBLISHED JUNE 2020, page 47	Detection of SARS-CoV-2 IgG antibodies by an immunoassay method, such as enzyme-linked immunosorbent assay. This test is used in conjunction with SARS-CoV-2 IgA and IgM to aid in the diagnosis of COVID-19 and in the identification of individuals infected with SARS-CoV-2.	Mark Andrew Miller, ORCID:0000-0001-9076-6066	LOINC indicates that this class would not include flow cytometry or any technique that can determine the localization of an analyte, such as peroxidase immune staining or indirect immunofluorescence (IFA)			https://github.com/obi-ontology/obi/issues/1203	subclass		assay														
OBI:0002946	fluorescence imaging-based apoptosis assay				A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures associated with molecular processes of apoptosis.	url:http://lincsportal.ccs.miami.edu/beta/assays/1		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay		fluorescence detection assay												
OBI:0002947	fluorescence imaging-based cell proliferation assay			fluroescence imaging-based cell count assay	A type of cell proliferation assay in which fluorescent dyes are ued to label and detect proteins or structures that can be used to count cells.	url:http://lincsportal.ccs.miami.edu/beta/assays/31		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cell proliferation assay		fluorescence detection assay												
OBI:0002948	fluroescence imaging-based cell cycle state assay				A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures associated with particular cell cycle states.	url:http://lincsportal.ccs.miami.edu/beta/assays/10		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay		fluorescence detection assay												
OBI:0002949	fluorescence imaging-based cell viability assay				A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures associated with cell viability.	url:http://lincsportal.ccs.miami.edu/beta/assays/27		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay		fluorescence detection assay												
OBI:0002950	fluorescence imaging-based drug synergy assay				A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures to determine if drugs applied to cells in combination have a greater effect together than the sum of their separate effects.	url:http://lincsportal.ccs.miami.edu/beta/assays/7		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay		fluorescence detection assay												
OBI:0002951	fluorescence imaging-based cell morphology assay				A type of cytometry assay in which fluorescent dyes are used to label and detect proteins or structures in order to determine cell morphology.	Michelle Giglio|Suvarna Nadendla|CFDE		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay		fluorescence detection assay												
OBI:0002952	fluorescence imaging multiplex cytological profiling				A type of cytometry assay in which fluorescent dyes are used to stain seven major cellular components followed by automatic image capture and analysis which extracts shape, texture, and intensity parameters.	url:http://lincsportal.ccs.miami.edu/beta/assays/8		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay		fluorescence detection assay												
OBI:0002953	protein state assay				A type of assay that measures the quantity and/or identity of proteins in their modficied and unmodified states where modifications include phosphorylation, methylation, acetylation, etc.	Michelle Giglio|Suvarna Nadendla|CFDE		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		assay														
OBI:0002954	fluorescence imaging-based protein phosphorylation state assay				A type of protein state assay that employs high-throughput microscopy to measure levels of proteins in different phosphorylation states.	url:http://lincsportal.ccs.miami.edu/beta/assays/15		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		protein state assay		fluorescence detection assay												
OBI:0002955	mass spectrometry-based protein state assay				A type of protein state assay that employs mass spectrometry to measure levels of proteins in different phosphorylation states.	Michelle Giglio|Suvarna Nadendla|CFDE		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		protein state assay		mass spectrometry assay												
OBI:0002956	targeted, drug-modulated, mass spectrometry-based protein phoshporylation-state assay			P100 phosphoprotein quantification assay	A type of mass spectrometry protein state assay that measures levels of a targeted set of proteins in different phosphorylation states in response to drug perturbations.	PMID:26912667|PMID:29655704		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		mass spectrometry-based protein state assay														
OBI:0002957	reverse phase protein array profiling assay			RPPA assay|reverse phase lysate array profiling assay|RPLA assay	A type of protein state assay where tissue or cell samples are lysed and then spotted onto a slide which is probed with antibodies specific to proteins with and without post-translational modifications.	PMID:31820393|PMID: 17041095		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		protein state assay														
OBI:0002958	SWATH-MS protein profiling assay			sequential window acquisition of all theoretical mass spectra protein profiling assay	A type of mass spectrometry assay using a data-independent acquisition method to identify target peptides.	PMID:30104418		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		protein expression profiling assay		mass spectrometry assay												
OBI:0002959	tandem mass tag mass spectrometry assay				A type of tandem mass spectrometry where isotopomer labels are employed for accurate quantification and identification of specific proteins.	PMID:12713048		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		tandem mass spectrometry assay														
OBI:0002960	fluorescence imaging-based reporter gene assay				A type of reporter gene assay that employs fluorescence imaging to detect a reporter gene's expression.	Michelle Giglio|Suvarna Nadendla|CFDE		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		reporter gene assay		fluorescence detection assay												
OBI:0002961	global chromatin profiling by mass spectrometry assay			GCP|global chromatin profiling|global chromatin epigenetic profiling	A type of epigenetic modification assay that employs targeted quantitative mass spectrometry to profile modifications of the core histones of chromatin.	PMID:25448295		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		epigenetic modification assay		mass spectrometry assay											epigenetic modification identification objective	
OBI:0002962	kinase inhibitor assay				A type of assay that identifies compounds that inhibit the activity of kinases.	Michelle Giglio|Suvarna Nadendla|CFDE		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		assay														
OBI:0002963	KINOMEscan assay				A type of proprietary kinase inhibitor assay that and employs a panel of kinases against which one can test compounds for their selectivity and potency in interactions with kinases, without the need to add ATP to the reactions.	url:https://www.discoverx.com/technologies-platforms/competitive-binding-technology/kinomescan-technology-platform		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		kinase inhibitor assay														
OBI:0002964	KiNativ assay				A type of proprietary in situ kinase inhibitor assay that employs biotinylated acyl phosphates of ATP and ADP.	url:https://www.kinativ.com/technology.html		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		kinase inhibitor assay														
OBI:0002965	landmark transcript profiling assay			L1000 mRNA profiling assay	A type of transcription profiling assay in which a set of landmark transcripts that have been determined to provide a comprehensive profile of cell activity, plus numerous steady-state controls, are assayed via ligation-mediated amplification followed by capture on fluorescently labeled microspheres followed by detection of fluorescence.	PMID:29195078		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		transcription profiling assay														
OBI:0002966	microenvironment microarray assay			MEMA assay	A type of cytometry assay where cells are incubated for three days with a standardized set of extracellular matrix proteins in combination with various ligands creating varying microenvironment perterbations for the cells. Immunofluorescent imaging of cells is used to measure features such as morphology, metabolism, cell cycle, and nuclear activity.	PMID:29199020		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		cytometry assay														
OBI:0002967	microwestern meso-scale quantitative western blot assay				A western blot assay that provides a high-throughput, sensitive, and quantitative measurement of proteins from numerous samples via an array of small western blots on a single sheet of nitrocellulose.	PMID:28092050		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		western blot assay														
OBI:0002968	positive/negative ion switching metabolite profiling assay			positive/negative ion switching metabolomic assay	A type of metabolic profiling assay which employs a hybrid dual quadrupole linear ion trap mass spectrometer for steady-state profiling of endogenous polar metabolites from organic extractions from biological samples.	PMID:22498707		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		metabolite profiling assay		mass spectrometry assay												
OBI:0002969	cyclic immunofluoroescence assay				A type of microscopy assay resulting in highly multiplexed immunofluorescence imaging through sequential rounds of imaging followed by fluorophore inactivation.	PMID:27925668|PMID:29993362		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		microscopy assay														
OBI:0002970	multiplex bead-based protein state immunoassay				A type of protein state assay in which antibodies attached to different colored beads and fluorescent reporter dye labels are used in a multiplexed mixture to assay for proteins in specific states.	url:https://www.bio-rad.com/en-us/applications-technologies/multiplex-immunoassays?ID=LUSM0E8UU		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE-LINCS	https://github.com/obi-ontology/obi/issues/1243	subclass		protein state assay														
OBI:0002984	capture Hi-C assay			cHi-C	A Hi-C assay in which a selection step is performed on ligated fragments in order to enrich for ligation products containing specific regions of interest.	PMID:29979818	PMID:29979818 Chromosome conformation capture (3C), coupled with next-generation sequencing (Hi-C), provides a means for deciphering not only the principles underlying genome folding and architecture, but more broadly, the role 3D chromatin structure plays in gene regulation and the replication and repair of DNA.	Bonita Lam				https://github.com/obi-ontology/obi/issues/1251	subclass		Hi-C assay														
OBI:0002985	magnetic resonance imaging assay			MRI	An imaging assay in which nuclear magnetic resonance is used to produce information about the interior structure and composition of an input material entity.	url:https://en.wikipedia.org/wiki/Magnetic_resonance_imaging		Rebecca Jackson|Alexander D. Bartnik, ORCID:0000-0001-9676-7377|Lucas M. Serra, ORCID:0000-0002-2104-0568|Alexander D. Diehl, ORCID:0000-0001-9990-8331|Mackenzie T. Smith, ORCID:0000-0002-9821-4132|William D. Duncan, ORCID:0000-0001-9625-1899|Lauren M. Wishnie, ORCID:0000-0002-7245-3450				https://github.com/obi-ontology/obi/issues/1290	subclass		imaging assay						NMR instrument			 ('has role' some 'magnetic resonance imaging evaluant role')					(realizes some (concretizes some 'magnetic resonance pulse sequence protocol'))
OBI:0002986	computed tomography imaging assay			CT scan|CAT scan|computed tomography scan	An imaging assay that uses a series of X-ray images to produce information about the interior structure and composition of an input material entity.	url:https://www.mayoclinic.org/tests-procedures/ct-scan/about/pac-20393675		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1290	subclass		imaging assay						computed tomography scanner								
OBI:0002987	positron emission tomography imaging assay			PET scan|positron emission tomography scan	An imaging assay in which positron-emitting radionuclides are used to visualize functional processes of an input material entity.	url:https://en.wikipedia.org/wiki/Positron_emission_tomography		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1290	subclass		imaging assay						positron emission tomography scanner								
OBI:0002990	T cell receptor repertoire sequencing assay			TCR repertoire sequencing assay|bulk TCR assay	A sequencing assay that determines the sequences of DNA or RNA molecules that encode the repertoire of T cell receptors within an input sample.	doi:10.1186/s12896-017-0379-9		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1307	subclass		sequencing assay														
OBI:0002991	B cell receptor repertoire sequencing assay			BCR repertoire sequencing assay|Antibody repertoire sequencing assay|bulk BCR assay	A sequencing assay that determines the sequence of a DNA or RNA molecules that encode the repertoire of B cell receptors within an input sample.	doi:10.1186/s12896-017-0379-9		Rebecca Jackson				https://github.com/obi-ontology/obi/issues/1307	subclass		sequencing assay														
OBI:0003009	ferritin assay				An assay that measures ferritin	OBI		James A. Overton, ORCID:0000-0001-5139-5557					equivalent		assay											ferritin complex			
OBI:0003010	fibrinogen assay				An assay that measures fibrinogen	OBI		James A. Overton, ORCID:0000-0001-5139-5558					equivalent		assay											fibrinogen complex			
OBI:0003011	iron assay				An analyte assay that measures the abundance of iron	OBI		James A. Overton, ORCID:0000-0001-5139-5559					equivalent		analyte assay					iron cation									
OBI:0003012	ionized calcium assay				An analyte assay that measures the abundance of ionized calcium	OBI		James A. Overton, ORCID:0000-0001-5139-5561					equivalent		analyte assay					calcium ion									
OBI:0003013	transferrin assay				An analyte assay that measures the abundance of transferrin	OBI		James A. Overton, ORCID:0000-0001-5139-5562					equivalent		analyte assay					serotransferrin									
OBI:0003014	uric acid assay				An analyte assay that measures the abundance of uric acid	OBI		James A. Overton, ORCID:0000-0001-5139-5563					equivalent		analyte assay					uric acid									
OBI:0003015	globulin assay				An analyte assay that measures the abundance of globulin	OBI		James A. Overton, ORCID:0000-0001-5139-5564					equivalent		analyte assay					globulin type									
OBI:0003016	myelocyte assay				A cytometry assay that measures the abundance and/or characteristics of myelocytes	OBI		James A. Overton, ORCID:0000-0001-5139-5565					equivalent		cytometry assay											myelocyte			
OBI:0003017	metamyelocyte assay				A cytometry assay that measures the abundance and/or characteristics of metamyelocytes	OBI		James A. Overton, ORCID:0000-0001-5139-5566					equivalent		cytometry assay											metamyelocyte			
OBI:0003018	hematocrit assay				A cytometry assay that measures the proportion of red blood cells	OBI		James A. Overton, ORCID:0000-0001-5139-5567					equivalent		cytometry assay											erythrocyte			
OBI:0003019	promyelocyte assay				A cytometry assay that measures the abundance and/or characteristics of promyelocytes	OBI		James A. Overton, ORCID:0000-0001-5139-5568					equivalent		cytometry assay											promyelocyte			
OBI:0003021	basophil assay				A cytometry assay that measures the abundance and/or characteristics of basophils	OBI		James A. Overton, ORCID:0000-0001-5139-5569					equivalent		cytometry assay											basophil			
OBI:0003022	neutrophil assay				A cytometry assay that measures the abundance and/or characteristics of neutrophils	OBI		James A. Overton, ORCID:0000-0001-5139-5570					equivalent		cytometry assay											neutrophil			
OBI:0003023	eosinophil assay				A cytometry assay that measures the abundance and/or characteristics of eosinophils	OBI		James A. Overton, ORCID:0000-0001-5139-5571					equivalent		cytometry assay											eosinophil			
OBI:0003024	lymphocyte assay				A cytometry assay that measures the abundance and/or characteristics of lymphocytes	OBI		James A. Overton, ORCID:0000-0001-5139-5572					equivalent		cytometry assay											lymphocyte			
OBI:0003025	monocyte assay				A cytometry assay that measures the abundance and/or characteristics of monocytes	OBI		James A. Overton, ORCID:0000-0001-5139-5573					equivalent		cytometry assay											monocyte			
OBI:0003026	reticulocyte assay				A cytometry assay that measures the abundance and/or characteristics of reticulocytes	OBI		James A. Overton, ORCID:0000-0001-5139-5574					equivalent		cytometry assay											reticulocyte			
OBI:0003027	macrophage assay				A cytometry assay that measures the abundance and/or characteristics of macrophages	OBI		James A. Overton, ORCID:0000-0001-5139-5577					equivalent		cytometry assay											macrophage			
OBI:0003028	platelet assay				A cytometry assay that measures the abundance and/or characteristics of platelets	OBI		James A. Overton, ORCID:0000-0001-5139-5578					equivalent		cytometry assay											platelet			
OBI:0003031	fluorogenic PCR assay			TaqMan	A polymerase chain reaction assay that uses target specific probes labeled with fluorogenic chromophores.	MIRO:20000102		John Judkins				https://github.com/obi-ontology/obi/issues/1320	subclass		polymerase chain reaction assay														
OBI:0003032	genotyping by PCR assay				A genotyping assay that uses polymerase chain reaction.	VEuPathDB	genotyping by PCR assay to identify microsatellites, chromosomal inversions and targeted assays of known resistance loci.	Chris Stoeckert, ORCID:0000-0002-5714-991X|Jie Zheng, ORCID:0000-0002-2999-0103			VEuPathDB	https://github.com/obi-ontology/obi/issues/1348	subclass		genotyping assay	polymerase chain reaction													
OBI:0003033	cleavage under targets and release using nuclease assay			CUT&RUN assay	A type of DNA sequencing assay employing in situ chromatin profiling in which antibody-targeted controlled cleavage by micrococcal nuclease releases specific protein-DNA complexes into the the supernatant for sequencing.	url:https://elifesciences.org/articles/21856		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			bonitalam	https://github.com/obi-ontology/obi/issues/1192	subclass		DNA sequencing assay														
OBI:0003034	cleavage under targets and tagmentation			CUT&Tag assay	A type of DNA sequencing assay employing in situ chromatin profiling in which a chromatin protein is bound in situ by a specific antibody, which then tethers to a protein A-Tn5 hyperactive transposase fusion protein (pA-Tn5) loaded with sequence adapters. Activation of pA-Tn5 results in factor-targeted tagmentation, generating fragments ready for PCR enrichment and DNA sequencing.	url:https://www.nature.com/articles/s41467-019-09982-5		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			bonitalam	https://github.com/obi-ontology/obi/issues/1192	subclass		DNA sequencing assay														
OBI:0003035	coma severity assay				A physical examination of an organism that has the objective to determine the severity of coma in a patient.		Examining a patient and grading their coma status on the Blantyre or Glasgow coma scale.	John Judkins			John Judkins	https://github.com/obi-ontology/obi/issues/1357	subclass		physical examination of an organism														
OBI:0003036	Plasmodium gametocyte detection assay				An assay that detects Plasmodium gametocytes in a specimen.	VEuPathDB		Jie Zheng|Chris Stoeckert|John Judkins				https://github.com/obi-ontology/obi/issues/1322	subclass		parasite detection assay			specimen	Plasmodium gametocyte										
OBI:0003037	malaria rapid diagnosis assay			malaria rapid diagnosis test	An assay that is quick and easy in the diagnosis of malaria by detecting evidence of malaria parasites (antigens) in human blood.	VEuPathDB		Jie Zheng|Chris Stoeckert				https://github.com/obi-ontology/obi/issues/1322	subclass		parasite detection assay			blood specimen	Plasmodium 										
OBI:0003038	parasite detection assay				An assay that detects parasite in a specimen.	VEuPathDB		Jie Zheng|Chris Stoeckert				https://github.com/obi-ontology/obi/issues/1322	subclass		organism detection assay			specimen	parasite organism										
OBI:0003039	feces microbiology assay			stool test for microorganisms	An organism detection assay that detects microorganisms in a feces specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1322	subclass		organism detection assay			feces specimen	organism										
OBI:0003040	blood assay				An assay that has a blood specimen as evaulant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1322	equivalent		assay			blood specimen											
OBI:0003041	falcivax rapid diagnostic test				A parasite detection assay that can quickly establish the diagnosis of P. falciparum or P. vivax malaria infection by detecting the antigens in a person's blood.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1322	subclass		parasite detection assay			blood specimen											
OBI:0003042	optimal-IT rapid diagnostic test				A parasite detection assay that is rapid, sensitive, and able to differentiate between P. falciparum and other malaria parasites.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1322	subclass		parasite detection assay			blood specimen											
OBI:0003043	urine assay				An assay that has a urine specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1322	equivalent		assay			urine specimen											
OBI:0003044	parasite species identification by PCR assay				A parasite detection by PCR assay that identifies the species of parasite.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1322	subclass		parasite detection by PCR assay		polymerase chain reaction assay												
OBI:0003045	parasite detection by PCR assay				A parasite detection assay that uses PCR.	VEuPathDB		Jie Zheng|Chris Stoeckert				https://github.com/obi-ontology/obi/issues/1322	subclass		parasite detection assay	polymerase chain reaction	polymerase chain reaction assay												
OBI:0003080	organismal body temperature measurement assay				An assay that detects body temperature of an organism.	VEuPathDB		Jie Zheng|Chris Stoeckert				https://github.com/obi-ontology/obi/issues/1322	subclass		temperature measurement assay			organism											
OBI:0003087	autofluorescence assay			intrinsic fluorescence assay	A fluorescence detection assay in which the light that is naturally emitted by a sample is visualized after excitation of the sample with light at a suitable wavelength.	PMID:25578980|url:https://en.wikipedia.org/wiki/Autofluorescence		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1393	subclass		fluorescence detection assay														
OBI:0003088	autofluorescence microscopy assay				An autofluorescence assay in which the light that is naturally emitted by a sample is visualized via microscopy after excitation of the sample with light at a suitable wavelength.	PMID:25578980|url:https://en.wikipedia.org/wiki/Autofluorescence		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1394	subclass		autofluorescence assay						microscope								
OBI:0003089	bulk assay for transposase-accessible chromatin using sequencing			bulk ATAC-seq	An assay for transposase-accessible chromatin using sequencing in which the sample that is sequenced is derived from a collection of cells, such as a tissue sample or entire cell culture, and therefore provides results representative of the aggregate of sample cells.	PMID:24097267		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1395	subclass		assay for transposase-accessible chromatin using sequencing														
OBI:0003090	bulk RNA-seq assay				An RNA-seq assay in which the sample that is sequenced is derived from a collection of cells, such as a tissue sample or entire cell culture, and therefore provides results representative of the aggregate of sample cells.	url:https://www.biostars.org/p/458516/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1396	subclass		RNA-seq assay														
OBI:0003091	multiplexed fluorescent antibody imaging assay				An imaging assay in which multiple cycles consisting of fluorescent labeling, imaging, and fluorophor deactivation are used to detect multiple proteins and their locations in a given sample of tissues or cells.	PMID:29993362		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1397	subclass		imaging assay		fluorescence detection assay												
OBI:0003092	Cell DIVE multiplexed imaging assay				A multiplexed fluorescent antibody imaging assay that involves an iterative staining, imaging and dye inactivation workflow for over 60 biomarkers on a single fixed tissue section.	url:https://cancerres.aacrjournals.org/content/80/16_Supplement/1448|url:https://www.cytivalifesciences.co.kr/wp-content/uploads/2020/07/Cell-DIVE-Tech-Info-Sheet-CY11898-09Apr20-DF.pdf		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1398	subclass		multiplexed fluorescent antibody imaging assay														
OBI:0003093	co-detection by indexing assay			CODEX	A multiplexed fluorescent antibody imaging assay that involves a highly multiplexed analysis of up to 40 proteins in a tissue using cyclic detection of DNA-indexed antibody panels.	url:https://www.scilifelab.se/facilities/co-detection-by-indexing-codex/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1399	subclass		multiplexed fluorescent antibody imaging assay														
OBI:0003094	fluorescence in-situ hybridization assay			FISH	An in-situ hybridization assay in which fluorescently labeled molecules are used to localize specific DNA or RNA sequences.	url:https://en.wikipedia.org/wiki/Fluorescence_in_situ_hybridization		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1400	subclass		in-situ hybridization assay		fluorescence detection assay												
OBI:0003095	decoding amplified targeted transcripts with fluorescence in situ hybridization assay			DARTFISH	A fluorescence in-situ hybridization assay which involves multiplex in situ digital quantification of targeted RNA transcripts in fresh or frozen tissue providing an understanding of the spatial organization of different cell types.	url:https://escholarship.org/uc/item/5bq3128f|url:http://genome-tech.ucsd.edu/ZhangLab/index.php/data/tech-dev/|url:http://www.weizmann.ac.il/conferences/SCG2015/sites/conferences.SCG2015/files/scg_2015_abstractbook_online_version.pdf		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1401	subclass		fluorescence in-situ hybridization assay			RNA extract		ribonucleic acid				(specimen and ('has part' some 'ribonucleic acid'))	measurement datum	gene expression		transcription profiling identification objective	
OBI:0003096	imaging mass cytometry assay			IMC|imaging CyTOF	A cytometry time of flight assay in which molecules of interest on or in cells are imaged through a system in which samples are labeled with multiple different rare-earth tagged antibodies. The sample is then ablated with a laser and the labeled material is detected by cytometry time of flight mass spectrometry.	PMID:31798587		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1403	subclass		cytometry time of flight assay														
OBI:0003097	liquid chromatography mass spectrometry assay			LC-MS	A mass spectrometry assay where a sample mixture is first separated by liquid chromatography before being converted into ions which are characterized by using mass spectrometry based on their mass-to-charge ratio and relative abundance.	CHMO:0000524		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1404	equivalent		mass spectrometry assay	liquid chromatography													
OBI:0003098	lightsheet fluorescence microscopy assay				A fluorescence microscopy that involves capturing of photons emitted by fluorophores excited with a thin sheet of laser light in a sample only in a relatively narrow plane by a detection objective oriented perpendicularly to the light sheet and imaged onto a detection device such as a CCD camera.	url:https://www.sciencedirect.com/topics/biochemistry-genetics-and-molecular-biology/light-sheet-fluorescence-microscopy		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1405	subclass		fluorescence microscopy assay														
OBI:0003099	matrix assisted laser desorption ionization imaging mass spectrometry assay			MALDI-IMS	A mass spectrometry assay that involves collection of spatially resolved mass spectra of a sample during microscopy where a pulse laser is used to produce both ionisation and vaporization. The sample is held in a matrix (such as dihydrobenzoic acid) to protect it from direct laser illumination and to separate the sample molecules. The spectra are used to visualise the spatial distribution of biomolecules by their molecular masses.	url:http://purl.obolibrary.org/obo/CHMO_0000054		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1406	subclass		mass spectrometry assay														
OBI:0003100	multiplexed ion beam imaging assay			MIBI	A cytometry time of flight assay in which molecules of interest on or in cells are imaged through a system in which samples are labeled with multiple different rare-earth tagged antibodies. A primary ion beam is ued to rasterize sections under vacuum, releasing showers of secondary ions detected by cytometry time of flight mass spectrometry.	url:https://www.nature.com/articles/s41374-020-0417-4		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1407	subclass		cytometry time of flight assay														
OBI:0003101	nanospray desorption electrospray ionization assay			NanoDESI	A mass spectrometry assay that analyzes organic and biological molecules on a substrate by desorption of an analyte into a solvent bridge formed between two capillaries and the analysis surface. One capillary supplies solvent to create and maintain the bridge, while the second capillary transports the dissolved analyte from the bridge to the mass spectrometer. A high voltage applied between the inlet of mass spectrometer and the primary capillary creates a self-aspirating nanospray.	url:https://pubmed.ncbi.nlm.nih.gov/20593081/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1408	subclass		mass spectrometry assay														
OBI:0003102	nanodroplet processing in one pot for trace samples assay			NanoPOTS	A protein expression profiling assay in which proteomics sample processing is performed in nanoliter volumes. Flow cytometry or laser microdissection is employed to isolate a small population or single cells into a nanoPOTS chip. Then, liquid chromatography mass spectrometry is used to measure the global protein expression.	url:https://www.emsl.pnnl.gov/science/related-instrument/nanodroplet-processing-in-one-pot-for-trace-samples--nanopots-/1806		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1409	subclass		protein expression profiling assay		liquid chromatography mass spectrometry assay												
OBI:0003103	periodic acid-Schiff staining assay			PAS staining	A histological assay which is used on tissue samples to demonstrate the presence of carbohydrates and carbohydrate compounds such as polysaccharides, mucin, glycogen, or fungal cell wall components.	url:https://microbenotes.com/periodic-acid-schiff-pas-staining/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1410	subclass		histological assay														
OBI:0003104	single cell combinatorial indexing assay for transposase-accessessable chromatin using sequencing			sciATACseq	An assay for transposase-accessible chromatin that uses sequencing which involves single cell combinatorial indexing ('sci-') strategy where nucleic acids from each of many cells are uniquely tagged through several rounds of split-pool barcoding which enables identification of single cells without single cell isolation.	url:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6158300/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1411	subclass		assay for transposase-accessible chromatin using sequencing														
OBI:0003105	single-cell combinatorial indexing RNA sequencing assay			sciRNAseq	A single-cell RNA sequencing assay that involves single cell combinatorial indexing ('sci-') strategy to profile the transcriptomes of single cells or nuclei without single cell isolation.	url:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5894354/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1412	subclass		single-cell RNA sequencing assay														
OBI:0003106	sequential fluorescence in-situ hybridization assay			seqFISH	A fluorescence in-situ hybridization assay that involves ultra-resolution imaging of cell activity by targetting thousands of single molecules with fluorescent probes which find and hybridize with complementary DNA or RNA sequences in the tissue sample, thus enabling identification of those molecules directly in single cells with their spatial context preserved.	url:https://spatial.caltech.edu/seqfish/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1413	subclass		fluorescence in-situ hybridization assay														
OBI:0003107	slide-seq assay				An RNA-seq assay that involves transfer of RNA from tissue sections onto a surface covered in DNA-barcoded beads with known positions, allowing the locations of the RNA to be inferred by sequencing.	url:https://science.sciencemag.org/content/363/6434/1463		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1414	subclass		RNA-seq assay														
OBI:0003108	single-nucleus chromatin accessibility and mRNA expression sequencing assay			SNAREseq|SNARE-seq	A single-nucleus RNA sequencing assay that involves joint profiling of accessible chromatin and RNA within the same cells which enables direct matching of transcriptional regulation to its outputs.	url:https://www.nature.com/articles/s41587-019-0290-0		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1416	subclass		single-nucleus RNA sequencing assay														
OBI:0003109	single-nucleus RNA sequencing assay			single nuclei RNA sequencing|sNuc-seq|snRNA-seq	A RNA-seq assay that is used for profiling gene expression in individual nuclei with optimized next generation sequencing (NGS) technologies. This allows the RNA-seq profiling of cell types that are more vulnerable to the tissue dissociation process, and that are therefore underrepresented in the final data set in single cell sequencing.	EFO:0009809|url:https://www.biocompare.com/Editorial-Articles/557506-Advantages-of-Single-Nucleus-RNA-Sequencing/		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1415	subclass		RNA-seq assay														
OBI:0003110	gas chromatography mass spectrometry assay			GC-MS	A mass spectrometry assay combining mass spectrometry and gas chromatography for the qualitative as well as quantitative determination of compounds.	url:http://purl.bioontology.org/ontology/MESH/D008401		Michelle Giglio|Suvarna Nadendla|Rebecca Jackson			CFDE	https://github.com/obi-ontology/obi/issues/1417	subclass		mass spectrometry assay														
OBI:0003111	SOMAscan assay				An analyte assay that uses aptamers to detect protein analytes in serum.	Rohloff JC, et al. Nucleic acid ligands with protein-like side chains: modified aptamers and their uses as diagnostic and therapeutic agents. Mol Ther Nucleic Acids. 2014;3:e201.		Bjoern Peters|Randi Vita			ImmPort	https://github.com/obi-ontology/obi/issues/1308	subclass		analyte assay														
OBI:0003112	Olink assay				A proximity extension assay that uses quantitative polymerase chain reaction (qPCR) technology to determine the concentration/presence of proteins using a high-multiplex, high-throughput protein biomarker platform. The assay utilizes two distinct oligonucleotide-labeled antibodies (‘probes’) that bind at different sites for each detected protein. When the two probes are in close proximity, a new PCR target sequence is formed by a proximity-dependent DNA polymerization event. The resulting sequence is subsequently detected and quantified using standard real-time PCR.	https://www.olink.com/		Bjoern Peters|Randi Vita|Hector Guzman-Orozco			ImmPort	https://github.com/obi-ontology/obi/issues/1308	subclass		proximity extension assay														
OBI:0003113	proximity extension assay				An analyte assay that uses quantitative polymerase chain reaction (qPCR) technology to determine the concentration/presence of an analyte or analyte complex.	Bjoern Peters		Bjoern Peters|Randi Vita|Hector Guzman-Orozco			ImmPort	https://github.com/obi-ontology/obi/issues/1308	subclass		analyte assay 		polymerase chain reaction assay												
OBI:0003115	antigen detection by cytometric bead array assay				A cytometric bead array assay in which a series of beads are coated with antibodies specific to antigens of interest. Antigens of interest attach to antibodies on the beads. Fluorescent labeled secondary antibodies are used to detect the antigens of interest.	CMI-PB		CMI-PB				https://github.com/obi-ontology/obi/issues/1399	subclass		cytometric bead array assay											antigen			
OBI:0003116	antibody detection by cytometric bead array assay				A cytometric bead array assay that detects antigen-specific antibodies. In the assay a series of beads are coated with antigens which capture antibodies specific to the antigens. Fluorescent labeled secondary antibodies are used to detect the antibodies of interest.	CMI-PB		CMI-PB				https://github.com/obi-ontology/obi/issues/1399	subclass		cytometric bead array assay											immunoglobulin complex			
OBI:0003117	3D molecular structure determination assay				An assay that determines the 3-dimensional configuration of a molecular entity or molecular complex.	IEDB		Bjoern Peters|Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1380	equivalent		3D structure determination assay										3D structural organization datum	('molecular entity' or 'complex of molecular entities')			
OBI:0003118	electron-microscopy 3D molecular structure determination assay				A 3D molecular structure determination assay that uses electron microscopy imaging.	IEDB		Bjoern Peters|Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1380	subclass		3D molecular structure determination assay						electron microscope								
OBI:0003122	3D cell structure determination assay				A 3D structure determination assay that determines the 3-dimensional configuration of a cell.	Hector Guzman-Orozco|Patrick Ray		Hector Guzman-Orozco|Patrick Ray				https://github.com/obi-ontology/obi/issues/1364	equivalent		3D structure determination assay			cell							3D structural organization datum	cell			
OBI:0003123	3D neural cell structure determination assay				A 3D cell structure determination assay that determines the 3-dimensional configuration of a neural cell.	Hector Guzman-Orozco|Patrick Ray		Hector Guzman-Orozco|Patrick Ray			Allen Institute for Brain Science	https://github.com/obi-ontology/obi/issues/1364	equivalent		3D cell structure determination assay										3D structural organization datum	neural cell			
OBI:0003124	neuron morphology assay				A 3D neural cell structure determination assay that determines the 3-dimensional configuration of a neuron.	Patrick Ray		Hector Guzman-Orozco|Patrick Ray			Allen Institute for Brain Science	https://github.com/obi-ontology/obi/issues/1364	subclass		3D neural cell structure determination assay										3D structural organization datum	neuron			
OBI:0003125	mosaicism with repeat frameshift genetic sparse labeling			MORF genetic sparse labeling	A 3D neural cell structure determination assay where sparse and stochastic methods are used to label genetically-defined neurons.	https://doi.org/10.1016/j.neuron.2020.07.019|https://biccn.org/teams/u01-yang		Patrick Ray			Allen Institute for Brain Science	https://github.com/obi-ontology/obi/issues/1364	subclass		3D neural cell structure determination assay										3D structural organization datum	neural cell			
OBI:0003126	neuron morphology reconstruction assay				A neuron morphology assay where the morphology or structure of a neuron is represented. Often, this assay is a combination of different assays (sparse labelling, fluorescent labeling, fMOST).	http://doi.org/10.1101/675280		Hector Guzman-Orozco|Patrick Ray	The representation of the morphology (3D structure) of a neuron can be a summary of various measurements relating to the dimensions of the neuron in question.		Allen Institute for Brain Science	https://github.com/obi-ontology/obi/issues/1364	subclass		neuron morphology assay														
OBI:0003148	albumin concentration assay				An albumin assay that measures the concentration of albumin in a specimen.			James A. Overton					subclass		albumin assay														
OBI:0003149	basophil percentage assay				A basophil assay that measures the percentage of basophils in a specimen.			James A. Overton					subclass		basophil assay														
OBI:0003150	calcium cation concentration assay				A calcium cation assay that measures the concentration of calcium cations in a specimen.			James A. Overton					subclass		calcium cation assay														
OBI:0003151	chloride concentration assay				A chloride assay that measures the concentration of chloride in a specimen.			James A. Overton					subclass		chloride assay														
OBI:0003152	cholesterol concentration assay				A cholesterol assay that measures the concentration of cholesterol in a specimen.			James A. Overton					subclass		cholesterol assay														
OBI:0003153	creatinine concentration assay				A creatinine assay that measures the concentration of creatinine in a specimen.			James A. Overton					subclass		creatinine assay														
OBI:0003154	eosinophil percentage assay				An eosinophil assay that measures the percentage of eosinophils in a specimen.			James A. Overton					subclass		eosinophil assay														
OBI:0003155	globulin concentration assay				A globulin assay that measures the concentration of globulin in a specimen.			James A. Overton					subclass		globulin assay														
OBI:0003156	hemoglobin concentration assay				A hemoglobin assay that measures the amount of hemoglobin in a specimen.			James A. Overton					subclass		hemoglobin assay														
OBI:0003157	high-density lipoprotein cholesterol concentration assay				A high-density lipoprotein cholesterol assay that measures the concentration of high-density lipoprotein cholesterol in a specimen.			James A. Overton					subclass		high-density lipoprotein cholesterol assay														
OBI:0003158	iron concentration assay				An iron assay that measures the concentration of iron cation in a specimen.			James A. Overton					subclass		iron assay														
OBI:0003159	low-density lipoprotein cholesterol concentration assay				A low-density lipoprotein cholesterol assay that measures the concentration of low-density lipoprotein cholesterol in a specimen.			James A. Overton					subclass		low-density lipoprotein cholesterol assay														
OBI:0003160	lymphocyte percentage assay				A lymphocyte assay that measures the percentage of lymphocytes in a specimen.			James A. Overton					subclass		lymphocyte assay														
OBI:0003161	metamyelocyte count assay				A metamyelocyte assay that measures the number of metamyelocytes in a specimen.			James A. Overton					subclass		metamyelocyte assay														
OBI:0003162	metamyelocyte percentage assay				A metamyelocyte assay that measures the percentage of metamyelocytes in a specimen.			James A. Overton					subclass		metamyelocyte assay														
OBI:0003163	methemoglobin percentage assay				A methemoglobin assay that measures the percentage of methemoglobin in a specimen.			James A. Overton					subclass		methemoglobin assay														
OBI:0003164	monocyte percentage assay				A monocyte assay that measures the percentage of monocytes in a specimen.			James A. Overton					subclass		monocyte assay														
OBI:0003165	myelocyte count assay				A myelocyte assay that measures the number of myelocytes in a specimen.			James A. Overton					subclass		myelocyte assay														
OBI:0003166	neutrophil percentage assay				A neutrophil assay that measures the percentage of neutrophils in a specimen.			James A. Overton					subclass		neutrophil assay														
OBI:0003167	phosphate ion concentration assay				A phosphate ion assay that measures the concentration of phosphate ions in a specimen.			James A. Overton					subclass		phosphate ion assay														
OBI:0003168	potassium(1+) concentration assay				A potassium(1+) assay that measures the concentration of potassium(1+) in a specimen.			James A. Overton					subclass		potassium(1+) assay														
OBI:0003170	reticulocyte percentage assay				A reticulocyte assay that measures the percentage of reticulocytes in a specimen.			James A. Overton					subclass		reticulocyte assay														
OBI:0003171	sodium(1+) concentration assay				A sodium(1+) assay that measures the concentration of sodium(1+) in a specimen.			James A. Overton					subclass		sodium(1+) assay														
OBI:0003172	thyroid stimulating hormone concentration assay				A thyroid stimulating hormone assay that measures the concentration of thyroid stimulating hormone in a specimen.			James A. Overton					subclass		thyroid stimulating hormone assay														
OBI:0003173	triglyceride concentration assay				A triglyceride assay that measures the concentration of triglycerides in a specimen.			James A. Overton					subclass		triglyceride assay														
OBI:0003174	3,3',5'-triiodothyronine concentration assay				A 3,3',5'-triiodothyronine assay that measures the concentration of 3,3',5'-triiodothyronine in a specimen.			James A. Overton					subclass		""3,3',5'-triiodothyronine assay""														
OBI:0003175	fibrinogen concentration assay				A fibrinogen assay that measures the concentration of fibrinogen in a specimen.			James A. Overton					subclass		fibrinogen assay														
OBI:0003176	free thyroxine concentration assay				A thyroxine assay that measures the concentration of free thyroxine in a specimen.			James A. Overton					subclass		thyroxine assay														
OBI:0003177	total thyroxine concentration assay				A thyroxine assay that measures the concentration of total thyroxine in a specimen.			James A. Overton					subclass		thyroxine assay														
OBI:0003180	direct bilirubin concentration assay				A bilirubin IXalpha assay that measures the concentration of direct bilirubin in a specimen.			James A. Overton					subclass		bilirubin IXalpha assay														
OBI:0003181	indirect bilirubin concentration assay				A bilirubin IXalpha assay that measures the concentration of indirect bilirubin in a specimen.			James A. Overton					subclass		bilirubin IXalpha assay														
OBI:0003182	total bilirubin concentration assay				A bilirubin IXalpha assay that measures the concentration of total bilirubin in a specimen.			James A. Overton					subclass		bilirubin IXalpha assay														
OBI:0003183	mean cell hemoglobin assay				A hemoglobin assay that measures the average concentration of hemoglobin in a population of erythrocytes.			James A. Overton					subclass		hemoglobin assay														
OBI:0003184	mean cell hemoglobin concentration assay				A hemoglobin assay that measures the concentration of hemoglobin in a specimen.			James A. Overton					subclass		hemoglobin assay														
OBI:0003185	mean platelet volume assay				A platelet assay that measures the average volume of platelets in a specimen.			James A. Overton					subclass		platelet assay														
OBI:0003186	immature neutrophil count assay				A neutrophil assay that measures the number of immature neutrophils in a specimen.			James A. Overton					subclass		neutrophil assay				immature neutrophil							immature neutrophil			
OBI:0003187	immature neutrophil percentage assay				An neutrophil assay that measures the percentage of immature neutrophils in a specimen.			James A. Overton					subclass		neutrophil assay				immature neutrophil							immature neutrophil			
OBI:0003188	nucleated erythrocyte percentage assay				An erythrocyte assay that measures the percentage of nucleated erythrocytes in a specimen.			James A. Overton					subclass		erythrocyte assay				nucleate erythrocyte							nucleate erythrocyte			
OBI:0003189	mean cell volume assay				An erythrocyte assay that measures the average volume of erythrocytes in a specimen.			James A. Overton					subclass		erythrocyte assay														
OBI:0003190	erythrocyte assay				A cytometry assay that measures the abundance and/or characteristics of erythrocytes.			James A. Overton					subclass		cytometry assay				erythrocyte							erythrocyte			
OBI:0003191	manual hematocrit assay				A hematocrit assay that measures the percentage of erythrocytes in a specimen by manual processes.			James A. Overton					subclass		hematocrit assay				erythrocyte							erythrocyte			
OBI:0003192	adiponectin assay				An analyte assay that measures the abundance of adiponectin			James A. Overton					subclass		analyte assay					adiponectin									
OBI:0003193	adiponectin concentration assay				An adiponectin assay that measures the concentration of adiponectin in a specimen.			James A. Overton					subclass		adiponectin assay					adiponectin									
OBI:0003194	creatine assay				An analyte assay that measures the abundance of creatine			James A. Overton					subclass		analyte assay					creatine									
OBI:0003195	creatine concentration assay				A creatine assay that measures the concentration of creatine in a specimen.			James A. Overton					subclass		creatine assay					creatine									
OBI:0003196	estradiol assay				An analyte assay that measures the abundance of estradiol			James A. Overton					subclass		analyte assay					estradiol									
OBI:0003197	estradiol concentration assay				An estradiol assay that measures the concentration of estradiol in a specimen.			James A. Overton					subclass		estradiol assay					estradiol									
OBI:0003202	leptin assay				An analyte assay that measures the abundance of leptin			James A. Overton					subclass		analyte assay					leptin									
OBI:0003203	leptin concentration assay				An leptin assay that measures the concentration of leptin in a specimen.			James A. Overton					subclass		leptin assay														
OBI:0003204	lipoprotein concentration assay				An analyte assay that measures the abundance of lipoprotein			James A. Overton					subclass		analyte assay					lipoprotein									
OBI:0003205	high-density lipoprotein concentration assay				A lipoprotein concentration assay that measures the concentration of high-density lipoprotein in a specimen.			James A. Overton					subclass		lipoprotein concentration assay					high-density lipoprotein									
OBI:0003206	low-density lipoprotein concentration assay				A lipoprotein concentration assay that measures the concentration of low-density lipoprotein in a specimen.			James A. Overton					subclass		lipoprotein concentration assay					low-density lipoprotein									
OBI:0003207	very-low-density lipoprotein concentration assay				A lipoprotein concentration assay that measures the concentration of very-low-density lipoprotein in a specimen.			James A. Overton					subclass		lipoprotein concentration assay					very-low-density lipoprotein									
OBI:0003208	luteinizing hormone assay				An analyte assay that measures the abundance of luteinizing hormone			James A. Overton					subclass		analyte assay					Luteinizing hormone									
OBI:0003209	luteinizing hormone concentration assay				A luteinizing hormone assay that measures the concentration of luteinizing hormone in a specimen.			James A. Overton					subclass		luteinizing hormone assay														
OBI:0003210	nitrite assay				An analyte assay that measures the abundance of nitrite			James A. Overton					subclass		analyte assay					nitrite									
OBI:0003211	nitrite concentration assay				A nitrite assay that measures the concentration of nitrite in a specimen.			James A. Overton					subclass		nitrite assay														
OBI:0003212	phospholipid assay				An analyte assay that measures the abundance of phospholipid			James A. Overton					subclass		analyte assay					phospholipid									
OBI:0003213	phospholipid concentration assay				A phospholipid assay that measures the concentration of phospholipids in a specimen.			James A. Overton					subclass		phospholipid assay														
OBI:0003214	progesterone assay				An analyte assay that measures the abundance of progesterone			James A. Overton					subclass		analyte assay					progesterone									
OBI:0003215	progesterone concentration assay				A progesterone assay that measures the concentration of progesterone in a specimen.			James A. Overton					subclass		progesterone assay														
OBI:0003216	testosterone assay				An analyte assay that measures the abundance of testosterone			James A. Overton					subclass		analyte assay					testosterone									
OBI:0003217	testosterone concentration assay				A testosterone assay that measures the concentration of testosterone in a specimen.			James A. Overton					subclass		testosterone assay														
OBI:0003218	bile salt assay				An analyte assay that measures the abundance of bile salt			James A. Overton					subclass		analyte assay					bile salt									
OBI:0003219	bile salt concentration assay				A bile salt assay that measures the concentration of bile salt in a specimen.			James A. Overton					subclass		bile salt assay														
OBI:0003220	fatty acid assay				An analyte assay that measures the abundance of fatty acid			James A. Overton					subclass		analyte assay					fatty acid									
OBI:0003221	free fatty acid concentration assay				A fatty acid assay that measures the concentration of free fatty acids in a specimen.			James A. Overton					subclass		fatty acid assay														
OBI:0003222	insulin assay				An analyte assay that measures the abundance of insulin			James A. Overton					subclass		analyte assay					insulin									
OBI:0003223	insulin concentration assay				A insulin assay that measures the concentration of insulin in a specimen.			James A. Overton					subclass		insulin assay														
OBI:0003224	follicle stimulating hormone assay				An analyte assay that measures the abundance of follicle stimulating hormone			James A. Overton					subclass		analyte assay					Follicle stimulating hormone									
OBI:0003225	follicle stimulating hormone concentration assay				A follicle stimulating hormone assay that measures the concentration of follicle stimulating hormone in a specimen.			James A. Overton					subclass		follicle stimulating hormone assay														
OBI:0003226	total lymphocyte count assay				A lymphocyte assay that measures the number of lymphocytes and large unstained cells in a specimen.			James A. Overton					subclass		lymphocyte assay														
OBI:0003227	total lymphocyte percentage assay				A lymphocyte assay that measures the percentage of lymphocytes and large unstained cells in a specimen.			James A. Overton					subclass		lymphocyte assay														
OBI:0003228	fluorescent immunospot assay			FLUOROSPOT	A cytometry assay that detects the presence of cells that secrete a material of interest (analyte). In the assay, a plate is coated with an antibody specific to the analyte of interest. These antibodies capture the analytes secreted by the cells. The analytes are then detected using fluorescent labeled secondary antibodies.	https://en.wikipedia.org/wiki/ELISpot#Mechanism_of_FluoroSpot		Hector Guzman-Orozco			CMI-PB	https://github.com/obi-ontology/obi/issues/1414	subclass		cytometry assay		fluorescence detection assay												
OBI:0003229	plasma proteomics assay				A proteomics profiling assay that detects proteins in a blood plasma specimen.	CMI-PB		Hector Guzman-Orozco			CMI-PB	https://github.com/obi-ontology/obi/issues/1414	subclass		proteomic profiling by array assay									blood plasma specimen					
OBI:0003230	T cell activation induced marker assay				A flow cytometry assay that detects the presence/amount of antigen-specific T cells without the need to identify their cytokine production. Instead, antigen-specific T cells are detected on the basis of upregulation of TCR stimulation-induced surface markers.	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4955771/		Hector Guzman-Orozco			CMI-PB	https://github.com/obi-ontology/obi/issues/1414	subclass		flow cytometry assay														
OBI:0003232	cerebrospinal fluid assay				An assay that has a cerebrospinal fluid specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			cerebrospinal fluid specimen											
OBI:0003233	endotracheal aspirate assay				An assay that has an endotracheal aspirate specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			endotracheal aspirate specimen											
OBI:0003234	induced sputum assay				An assay that has an induced sputum specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			induced sputum specimen											
OBI:0003235	lung assay				An assay that has a lung specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			lung specimen											
OBI:0003236	milk assay				An assay that has a milk specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			milk specimen											
OBI:0003237	feces assay				An assay that has a feces specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			feces specimen											
OBI:0003238	umbilical cord blood assay				An assay that has an umbilical cord blood specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			umbilical cord blood specimen											
OBI:0003239	saliva assay				An assay that has a saliva specimen as evaluant.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429	equivalent		assay			saliva specimen											
OBI:0003240	cerebrospinal fluid microbiology assay				An organism detection assay that detects microorganisms in a cerebrospinal fluid specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			cerebrospinal fluid specimen											
OBI:0003241	endotracheal tube aspirate microbiology assay				An organism detection assay that detects microorganisms in an endotracheal aspirate specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			endotracheal aspirate specimen											
OBI:0003242	induced sputum microbiology assay				An organism detection assay that detects microorganisms in an induced sputum specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			induced sputum specimen											
OBI:0003282	lung microbiology assay				An organism detection assay that detects microorganisms in a lung specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			lung specimen											
OBI:0003283	pleural fluid microbiology assay				An organism detection assay that detects microorganisms in a pleural fluid specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			pleural fluid specimen											
OBI:0003284	umbilical cord blood microbiology assay				An organism detection assay that detects microorganisms in an umbilical cord blood specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			blood microbiology assay			umbilical cord blood specimen											
OBI:0003285	nasopharyngeal or oropharyngeal swab microbiology assay				An organism detection assay that detects microorganisms in a nasopharyngeal or oropharyngeal swab specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			('nasopharyngeal swab specimen' or 'oropharyngeal swab specimen')											
OBI:0003286	urine microbiology assay				An organism detection assay that detects microorganisms in a urine specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1429			organism detection assay			urine specimen											
OBI:0003287	multiplex real time polymerase chain reaction assay			multiplexed real time polymerase chain reaction assay	A real time polymerase chain reaction assay in which multiple DNA sequences are amplified in a single cycle.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1431			real time polymerase chain reaction assay														
OBI:0003288	multiplex real time reverse-transcription polymerase chain reaction assay			multiplexed real time reverse-transcription polymerase chain reaction assay	A real time reverse-transcription polymerase chain reaction assay in which multiple DNA sequences are amplified in a single cycle.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1431			real time reverse-transcription polymerase chain reaction assay														
OBI:0003290	mosquito membrane feeding assay				An assay that evaluates host-to-mosquito transmission of a parasite organism by feeding a specimen of host blood infected with the parasite organism to a collection of mosquitoes through a mosquito membrane feeding device and, after a given time, dissecting the mosquitoes and counting the number of parasite organisms within them.	VEuPathDB	Testing the effectiveness of drugs or antibodies against parasite transmission.	John Judkins				https://github.com/obi-ontology/obi/issues/1439			assay			Culicidae	parasite organism		mosquito membrane feeding device								
OBI:0003294	modified acid-fast stain microscopy assay				A microscopy assay that uses staining to identify acid-fast organisms in a specimen and does not require heating.	NCIT:C85736|https://www.cdc.gov/dpdx/diagnosticprocedures/stool/staining.html		John Judkins				https://github.com/obi-ontology/obi/issues/1444	subclass		microscopy assay	staining													
OBI:0003296	antibodies from lymphocyte secretions assay			antibodies from lymphocyte supernatant assay|ALS assay	An assay that evaluates a blood specimen for antibodies currently being produced by lymphocytes in the specimen, by separating peripheral blood mononuclear cells, culturing them, and then collecting the supernatant containing the antibodies secreted from those cells.	VEuPathDB|OBI	PMID: 11329444.Clin Diagn Lab Immunol. 2001 May. Development of a Novel In Vitro Assay (ALS Assay) for Evaluation of Vaccine-Induced Antibody Secretion from Circulating Mucosal Lymphocytes.	John Judkins				https://github.com/obi-ontology/obi/issues/1443	subclass		assay			blood specimen	immunoglobulin complex										
OBI:0003297	tyramide signal amplification sequencing assay			TSA-seq	A DNA sequencing assay that uses tyramide signal amplification (TSA) to assess distance of DNA regions to a targeted nuclear compartment or protein, typically on a scale of 100-1000 nm.	PMID:30154186|EFO:0009971		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		DNA sequencing assay														
OBI:0003298	DNA adenine methyltransferase identification assay			DamID assay	An assay for identifying DNA binding sites for a protein by fusing it to Dam methylase, and expressing it so that bound DNA gets methylated. The methylated DNA can then be isolated and analyzed.	PMID:17545983|EFO:0008704		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		assay														
OBI:0003299	DamID-seq				A DNA adenine methyltransferase identification (DamID) assay in which DamID-generated DNA fragments undergo high-throughput sequencing to determine a protein's DNA-binding site.	4DN DCIC		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		DNA adenine methyltransferase identification assay		DNA sequencing assay												
OBI:0003300	nucleolus-associated domain sequencing assay			NAD-seq	A DNA sequencing assay in which nucleoli are isolated and the DNA associated with them is sequenced to identify nucleoli-associating domains.	PMID:31201210|EFO:0009972		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		DNA sequencing assay														
OBI:0003301	DNase Hi-C assay				A Hi-C assay in which DNase I is used for digesting DNA fragments rather than a restriction enzyme, which can result in a higher resolution of mapped chromosome contacts.	PMID:27685100|EFO:0009976		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003302	micro-C assay				A Hi-C assay which uses micrococcal nuclease digestion in place of the restriction enzyme digestion step.	PMID:26119342|EFO:0008808		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003303	single cell combinatorial indexing Hi-C assay			sci-Hi-C	A Hi-C assay performed on massively multiplexed single-cell samples.	PMID:28135255|EFO:0009977		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003304	single nucleus Hi-C assay			sn-Hi-C	A Hi-C assay performed on isolated nuclei.	PMID:28355183|EFO:0009978		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003305	single cell Hi-C assay				A Hi-C assay performed on a single cell.	EFO:0009979		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003306	bulk Hi-C assay				A Hi-C assay in which the sample that is sequenced is derived from a collection of cells, such as a tissue sample or entire cell culture, and therefore provides results representative of the aggregate of sample cells.	4DN DCIC		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003307	multi-contact Hi-C assay			MC-3C|MC-HI-C	A Hi-C assay that assesses interactions between multiple DNA fragments rather than only pairwise interactions as in traditional Hi-C. The experimental procedure of cross-linking, digestion, and ligation is performed similarly to traditional Hi-C, but after DNA is purified a long-read library is produced in which many ligated fragments may be contained in a single molecule. The library is then sequenced on a long read sequencer.	The 4D Nucleome Network		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		Hi-C assay														
OBI:0003309	transposase-mediated analysis of chromatin looping assay			TrAC-Loop	A DNA sequencing assay designed to detect interacting genomic regions. Rather than the traditional Hi-C approach of digestion and proximity ligation, the procedure involves transposase-mediated insertion of an oligonucleotide linker between the pair of interacting regions.	PMID:30150754|EFO:0009982		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		DNA sequencing assay														
OBI:0003310	split-pool recognition of interactions and tag extension assay			SPRITE	A sequencing assay designed to detect multi-way interactions between nucleic acids. The procedure involves crosslinking nuclei, and then splitting the lysate among wells in a 96-well or other multi-well plate. A different barcode is ligated to the fragments in each well, and the lysates are pooled together again. This sequence of splitting, tagging, and re-combining is repeated several times so that fragments with the same sequences of barcodes represent fragments that have co-associated throughout the experiment. Finally, a sequencing library is constructed and high-throughput sequencing is performed.	PMID:29887377|EFO:0009984		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		sequencing assay														
OBI:0003311	DNA split-pool recognition of interactions and tag extension assay			DNA SPRITE	A split-pool recognition of interactions and tag extension (SPRITE) assay that only assays interactions between regions of genomic DNA.	PMID:29887377|EFO:0009985		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		split-pool recognition of interactions and tag extension assay														
OBI:0003312	RNA-DNA split-pool recognition of interactions and tag extension assay			RNA-DNA SPRITE	A split-pool recognition of interactions and tag extension (SPRITE) assay in which RNA in the cross-linked complexes is converted to cDNA before the initial splitting step, allowing analysis of RNA-DNA interactions.	PMID:29887377|EFO:0009986		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		split-pool recognition of interactions and tag extension assay														
OBI:0003313	genome architecture mapping assay			GAM	A DNA sequencing assay designed to analyze 3D chromatin structure without relying on digestion and ligation. The procedure involves cryosectioning samples in random orientation, and then single nuclear profiles are isolated by laser microdissection. Each nuclear profile then undergoes high-throughput sequencing, and subsequent analysis can generate a matrix of inferred proximity between genomic regions.	PMID:28273065|EFO:0009987		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		DNA sequencing assay														
OBI:0003314	mapping RNA-genome interactions assay			MARGI	A nuclear ligation assay for probing RNA-DNA interactions in the nucleus. Nuclei are crosslinked, and RNA fragments are ligated to proximal DNA fragments via a special linker molecule. After reverse transcription, high-throughput sequencing is performed.	PMID:28132817|EFO:0009988		Michelle Giglio|Suvarna Nadendla			CFDE-4DN	https://github.com/obi-ontology/obi/issues/1472	subclass		nuclear ligation assay		DNA sequencing assay												
OBI:0003321	venous blood microbiology assay				A blood microbiology assay that detects a microorganism in a venous blood specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1491	subclass		blood microbiology assay			venous blood specimen	organism										
OBI:0003368	detection technique				An assay (A) that is part of another assay (B), where the target entities of A and B are disjoint, and the target entity of A is a proxy for the target of assay B.	OBI	Using a radioactivity detection assay as part of a tritiated thymidine incorporation assay to determine the degree to which cells are replicating by detecting radioactivity of tritiated thymidine, where radioactivity of tritiated thymidine in a cell is a proxy for cells that were actively replicating.	Bjoern Peters|Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1488	subclass		assay														'part of' some assay
OBI:0003381	placental blood microbiology assay				A blood microbiology assay that detects microorganisms in a placental blood specimen.	VEuPathDB		John Judkins				https://github.com/obi-ontology/obi/issues/1297	subclass		blood microbiology assay			placental blood specimen											
OBI:0003418	antigen specific antibodies in blood assay				An antigen specific antibodies assay that has a blood specimen as evaluant.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902			VEuPathDB	https://github.com/obi-ontology/obi/issues/1526	subclass		antigen specific antibodies assay			blood specimen											
OBI:0003419	antigen specific antibodies in milk assay				An antigen specific antibodies assay that has a milk specimen as evaluant.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902			VEuPathDB	https://github.com/obi-ontology/obi/issues/1526	subclass		antigen specific antibodies assay			milk specimen											
OBI:0003422	enzymatic activity level assay				An assay in which the level of catalytic activity of an enzyme is determined.			James A. Overton					subclass		assay											catalytic activity			
OBI:0003423	5'-nucleotidase activity level assay				An enzymatic activity level assay that measures the activity of 5'-nucleotidase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											""5'-nucleotidase activity""			
OBI:0003424	alanine aminotransferase activity level assay				An enzymatic activity level assay that measures the activity of alanine aminotransferase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											L-alanine:2-oxoglutarate aminotransferase activity			
OBI:0003425	alkaline phosphatase activity level assay				An enzymatic activity level assay that measures the activity of alkaline phosphatase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											alkaline phosphatase activity			
OBI:0003426	amylase activity level assay				An enzymatic activity level assay that measures the activity of amylase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											amylase activity			
OBI:0003427	aspartate aminotransferase activity level assay				An enzymatic activity level assay that measures the activity of aspartate aminotransferase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											L-aspartate:2-oxoglutarate aminotransferase activity			
OBI:0003428	cholinesterase activity level assay				An enzymatic activity level assay that measures the activity of cholinesterase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											cholinesterase activity			
OBI:0003429	creatine kinase activity level assay				An enzymatic activity level assay that measures the activity of creatine kinase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											creatine kinase activity			
OBI:0003430	gamma-glutamyltransferase activity level assay				An enzymatic activity level assay that measures the activity of gamma-glutamyltransferase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											D-glutamyltransferase activity			
OBI:0003431	glutamate dehydrogenase activity level assay				An enzymatic activity level assay that measures the activity of glutamate dehydrogenase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											glutamate dehydrogenase [NAD(P)+] activity			
OBI:0003432	isocitrate dehydrogenase activity level assay				An enzymatic activity level assay that measures the activity of isocitrate dehydrogenase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											isocitrate dehydrogenase [NAD(P)+] activity			
OBI:0003433	lactate dehydrogenase activity level assay				An enzymatic activity level assay that measures the activity of lactate dehydrogenase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											lactate dehydrogenase activity			
OBI:0003434	sorbitol dehydrogenase activity level assay				An enzymatic activity level assay that measures the activity of sorbitol dehydrogenase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											L-iditol 2-dehydrogenase (NAD+) activity			
OBI:0003435	acyl-CoA oxidase activity level assay				An enzymatic activity level assay that measures the activity of Acyl-CoA oxidase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											acyl-CoA oxidase activity			
OBI:0003436	N-acetyl-beta-glucosaminidase activity level assay				An enzymatic activity level assay that measures the activity of N-acetyl-beta-glucosaminidase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											beta-N-acetylglucosaminidase activity			
OBI:0003437	ribonuclease activity level assay				An enzymatic activity level assay that measures the activity of ribonuclease in a sample.			James A. Overton					equivalent		enzymatic activity level assay											RNA nuclease activity			
OBI:0003438	galactosidase activity level assay				An enzymatic activity level assay that measures the activity of galactosidase in a sample.			James A. Overton					equivalent		enzymatic activity level assay											galactosidase activity			
OBI:0003457	epitope protection from infectious challenge experiment based on survival			survival after infectious challenge	An epitope protection from infectious challenge experiment that determines the success of the epitope intervention based on increased survival of the host compared to controls.	IEDB		Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1594	subclass		epitope protection from infectious challenge experiment														
OBI:0003458	epitope protection from tumor challenge experiment based on burden			burden after tumor challenge	An epitope protection from tumor challenge experiment in which the readout is a reduction in the presence of malignant cells in the host compared to controls.	IEDB		Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1594	subclass		epitope protection from tumor challenge experiment														
OBI:0003459	epitope protection from tumor challenge experiment based on survival			survival after tumor challenge	An epitope protection from tumor challenge experiment that determines the success of the epitope intervention based on increased survival of the host compared to controls.	IEDB		Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1594	subclass		epitope protection from tumor challenge experiment														
OBI:0003480	Gram stain assay				An organism detection assay that identifies bacteria based on the differential retention of a crystal violet-iodine complex within the cell wall.	NCI|American Heritage Medical Dictionary		John Judkins ORCID:0000-0001-6595-0902	Gram-positive bacteria retain the violet stain whereas gram-negative bacteria do not.			https://github.com/obi-ontology/obi/issues/1603			organism detection assay														
OBI:0003498	organism detection assay				An assay that detects a type of organism and/or the quantity of individuals of a type of organism.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902	This term is a generalized version of the term previously known as 'organism identification assay', to include classification other than species and to include quantities as outputs.			https://github.com/obi-ontology/obi/issues/1633			assay									specimen		organism			
OBI:0003540	tandem mass spectrometry assay				A mass spectrometry assay that uses two or more analyzers separated by a region in which ions can be induced to fragment by transfer of energy (frequently by collision with other molecules).	http://purl.obolibrary.org/obo/OBI_0200198	A precursor ion is selected in the first stage, allowed to fragment and then all resultant masses are scanned in the second mass analyzer and detected in the detector that is positioned after the second mass analyzer. This experiment is commonly performed to identify transitions used for quantification by tandem MS.	Hector Guzman-Orozco, ORCID:0000-0003-3430-8997	Discussed on the OBI developer call 2022-03-07: 'tandem mass spectrometry' OBI:0200198 is under  'data transformation' but is actually defined like an assay. Moving OBI:0200198 from 'data transformation' to 'assay' is a major logical change, so the OBI development team supports obsoleting 'tandem mass spectrometry' OBI:0200198 and replacing it with ‘tandem mass spectrometry assay’ OBI:0003540.			https://github.com/obi-ontology/obi/issues/1506	subclass		mass spectrometry assay														
OBI:0003541	ELISA measuring Orientia tsutsugamushi IgM antibody				An enzyme-linked immunosorbent assay that detects the IgM antibody that binds Orientia tsutsugamushi.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1456	subclass		enzyme-linked immunosorbent assay				('IgM immunoglobulin complex' and 'has disposition to bind' some 'Orientia tsutsugamushi')										
OBI:0003542	microarray assay measuring Dengue IgM antibody				A microarray assay that detects the IgM antibody that binds Dengue.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1456	subclass		microarray assay				('IgM immunoglobulin complex' and 'has disposition to bind' some 'Dengue virus')										
OBI:0003543	microarray assay measuring NS1				A microarray assay that detects NS1.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1456	subclass		microarray assay					NS1									
OBI:0003544	analytical chromatography measuring Chikungunya IgM antibody				Analytical chromatography that detects the IgM antibody that binds Chikungunya.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1456	subclass		analytical chromatography				('IgM immunoglobulin complex' and 'has disposition to bind' some 'Chikungunya virus')										
OBI:0003545	ELISA measuring Chikungunya IgM antibody				An enzyme-linked immunosorbent assay that detects the IgM antibody that binds Chikungunya.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1456	subclass		enzyme-linked immunosorbent assay				('IgM immunoglobulin complex' and 'has disposition to bind' some 'Chikungunya virus')										
OBI:0003546	microarray ELISA measuring Chikungunya IgM antibody				An enzyme-linked immunosorbent assay that uses a microarray as the solid support and detects the IgM antibody that binds Chikungunya.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1456	subclass		enzyme-linked immunosorbent assay				('IgM immunoglobulin complex' and 'has disposition to bind' some 'Chikungunya virus')										
OBI:0003552	proximity ligation-assisted ChIP-seq			PLAC-seq	A chromosome conformation capture assay in which proximity ligation is conducted in nuclei prior to chromatin shearing and immunoprecipitation. Immunopreciptation with an antibody that targets a transcription factor or histone modification allows for selection and enrichment of specific genomic regions for investigation of long-range chromosomal interactions.	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5143423/		Hector Guzman-Orozco				https://github.com/obi-ontology/obi/issues/1145	subclass		chromosome conformation capture assay														
OBI:0003576	skin of body microbiology assay				An organism detection assay that detects microorganisms in a skin of body specimen.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1680	subclass		organism detection assay			skin of body specimen	organism					skin of body specimen	data item	organism			
OBI:0003578	bone marrow microbiology assay				An organism detection assay that detects microorganisms in a bone marrow specimen.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1680	subclass		organism detection assay			bone marrow specimen	organism					bone marrow specimen	data item	organism			
OBI:0003580	nasal aspirate microbiology assay				An organism detection assay that detects microorganisms in a nasal aspirate specimen.	VEuPathDB		John Judkins ORCID:0000-0001-6595-0902				https://github.com/obi-ontology/obi/issues/1680	subclass		organism detection assay			nasal aspirate specimen	organism					nasal aspirate specimen	data item	organism			
OBI:0003582	cell proliferation assay using carboxyfluorescein succinimidyl ester staining				A cell proliferation assay that uses carboxyfluorescein succinimidyl ester staining to detect cell division.			Sebastian Duesing				https://github.com/obi-ontology/obi/issues/1007	equivalent		cell proliferation assay	carboxyfluorescein succinimidyl ester staining													
OBI:0003583	cell viability assay				A cytometry assay which measures the number of living cells in a population.			Sebastian Duesing				https://github.com/obi-ontology/obi/issues/1007	equivalent		cytometry assay											viability			
OBI:0003584	cell viability assay using Annexin V staining				A cell viability assay that uses Annexin V staining to detect apoptotic cells.			Sebastian Duesing				https://github.com/obi-ontology/obi/issues/1007	equivalent		cell viability assay	Annexin V staining													
OBI:0003587	cell culture assay				An assay that has cell culture as an input.			Sebastian Duesing|Randi Vita					equivalent		assay									cultured cell population					
OBI:0003589	serum anti-Epstein-Barr virus antibody level assay			EBV	An antigen specific antibodies assay that is meant to detect antibodies that bind to Epstein-Barr virus (EBV) antigens in a serum sample.			Sebastian Duesing|Randi Vita					equivalent		antigen specific antibodies assay			blood serum specimen		('immunoglobulin complex' and ('has disposition to bind' some 'human gammaherpesvirus 4'))									
OBI:0003590	serum anti-cytomegalovirus antibody level assay			CMV	A CMV antibody assay that has serum as an input.			Sebastian Duesing|Randi Vita					equivalent		CMV antibody assay			blood serum specimen											
OBI:0003598	single cell B cell receptor repertoire sequencing assay	single cell B cell receptor repertoire sequencing assay		single-cell BCR assay	A B cell receptor repertoire sequencing assay that determines the sequence of DNA or RNA molecules that encode the repertoire of B cell receptors that can be traced to a single cell of origin.			Sebastian Duesing|Randi Vita					subclass		B cell receptor repertoire sequencing assay			nucleic acid extract											
OBI:0003599	single cell T cell receptor repertoire sequencing assay	single cell T cell receptor repertoire sequencing assay		single-cell TCR assay	A T cell receptor repertoire sequencing assay that determines the sequence of DNA or RNA molecules that encode the repertoire of T cell receptors that can be traced to a single cell of origin.			Sebastian Duesing|Randi Vita					subclass		T cell receptor repertoire sequencing assay			nucleic acid extract											
OBI:0003601	quartz crystal microbalance assay	quartz crystal microbalance assay		QCM	An assay that measures the change in frequency of a quartz crystal resonator resulting from the addition or removal of a small mass of a ligand specifically binding at the surface of the resonator.	http://www.ncbi.nlm.nih.gov/pubmed/23504432|https://en.wikipedia.org/wiki/Quartz_crystal_microbalance		Randi Vita|Bjoern Peters|Sebastian Duesing					subclass		assay														
OBI:0003604	multiplexed error-robust fluorescence in situ hybridization assay			MERFISH	A fluorescence in-situ hybridization assay that uses combinatorial FISH labeling with error resistant encoding schemes for highly multiplexed single-molecule imaging.	https://en.wikipedia.org/wiki/Fluorescence_in_situ_hybridization#MERFISH		Sebastian Duesing			Brain Image Library	https://github.com/obi-ontology/obi/issues/1724	subclass		fluorescence in-situ hybridization assay														
OBI:0003605	single molecule fluorescence in situ hybridization			smFISH	A fluorescence in-situ hybridization assay that detects single RNA molecules in fixed cells, allowing for both the quantification and localization at the single-cell level and single-molecule resolution.	https://doi.org/10.21769/BioProtoc.3070		Sebastian Duesing			Brain Image Library	https://github.com/obi-ontology/obi/issues/1725	subclass		fluorescence in-situ hybridization assay														
OBI:0003659	in vitro CRISPR screen assay	in vitro CRISPR screen assay			An assay in which cells expressing a Cas system are infected with a library of guide RNAs with the intent of causing a perturbation at the target of the guide RNAs.			Jennifer Jou|Bjoern Peters			Jennifer Jou	https://github.com/obi-ontology/obi/issues/1784	subclass		assay	cas mediated mutagenesis	assay	cell											
OBI:0003660	in vitro CRISPR screen using single-cell RNA-seq	in vitro CRISPR screen using single-cell RNA-seq			An in vitro CRISPR screen assay that uses single-cell RNA-Seq to detect induced changes in gene expression.			Jennifer Jou|Bjoern Peters			Jennifer Jou	https://github.com/obi-ontology/obi/issues/1784	equivalent		in vitro CRISPR screen assay		single-cell RNA sequencing assay												
OBI:0003661	in vitro CRISPR screen using flow cytometry	in vitro CRISPR perturbation screen using flow cytometry			An in vitro CRISPR screen assay that uses flow cytometry to detect induced changes in gene expression of the targeted genes.			Jennifer Jou|Bjoern Peters			Jennifer Jou	https://github.com/obi-ontology/obi/issues/1784	equivalent		in vitro CRISPR screen assay		flow cytometry assay												
OBI:0003662	single-nucleus methylcytosine and transcriptome sequencing assay	single-nucleus methylcytosine and transcriptome sequencing assay		snmCT-seq	A DNA methylation profiling by high throughput sequencing assay that measures the cytosine DNA methylation and gene expression signature of single nuclei.	Jennifer Jou	https://www.biorxiv.org/content/10.1101/434845v1	Sebastian Duesing|Jennifer Jou			Jennifer Jou	https://github.com/obi-ontology/obi/issues/1785	equivalent		DNA methylation profiling by high throughput sequencing assay	artificially induced reverse transcription		RNA extract			DNA sequencer			RNA extract	sequence data	primary structure of RNA molecule			
OBI:0003686	chromatin accessibility assay	chromatin accessibility assay			An assay that determines which regions of a DNA molecule are in the form of euchromatin and thus able to make direct physical contact with (i.e. are accessible to) other molecules such as RNA polymerase, transcription factors, etc.	Michelle Giglio		Sebastian Duesing|Michelle Giglio|Bjoern Peters			Jennifer Jou	https://github.com/obi-ontology/obi/issues/1813	subclass		assay														
OBI:0003687	m6A-MTase sequencing assay	m6A-MTase sequencing assay		Fiber-seq	A DNA methylation profiling assay in which chromatin stencils are created by treating nuclei with m6A methyltransferase (MTase) and then sequenced using single-molecule circular consensus sequencing to identify regions of accessible DNA at nucleotide resolution.	Jennifer Jou	https://pubmed.ncbi.nlm.nih.gov/32587015/	Jennifer Jou|Sebastian Duesing			Jennifer Jou	https://github.com/obi-ontology/obi/issues/1813	subclass		chromatin accessibility assay														
OBI:0302736	comet assay		ready for release	single cell gel electrophoresis assay|SCGE assay	An assay that measures DNA damage (DNA breakage) in eucaryotic cells exposed to a challenge by determining the size and shape of DNA migration by detecting fluorescently labeled DNA from a cell placed in an electric field using gel electrophoresis	PMID:7686265	PMID: 18326531.Mutagenesis. 2008 Mar 6.Recommendations for design of the rat comet assay.	Philippe Rocca-Serra					subclass		assay		fluorescence microscopy assay	cell				('material entity' and ('has role' some 'dye role') and ('bearer of' some fluorescence))		agarose gel	information content entity	DNA damage response			
OBI:0302737	PCR-SSCP assay		ready for release	polymerase chain reaction-single strand conformation polymorphism assay	An assay that identifies DNA sequence variation (mutation, deletion, insertions) in target DNA sequences amplified using polymerase chain reaction using gel electrophoresis and denaturating conditions	PMID:18219595	PMID: 17334176.Hum Exp Toxicol. 2007 Jan;26(1):9-18.Is there a role for PCR-SSCP among the methods for missense mutation detection of TP53 gene?	Philippe Rocca-Serra					subclass		genotyping assay	polymerase chain reaction|material component separation								amplified DNA	(image and 'genotype information')				
OBI:0600002	tumor grading		pending final vetting	grading of tumor	An assay that determines the grade (severity/stage) of a tumor sample, used in cancer biology to describe abnormalities/qualities of tumor cells or tissues. Values can be described by terms from NCI Thesaurus.	OBI branch derived; submitted by MO		Compiled by Helen Parkinson for Transcriptomics thanks to Adam Witney					subclass		assay									specimen		disease course			
OBI:0600017	assay detecting a molecular label		pending final vetting		An assay that detects the presence or a quality of a molecular label which is a proxy for the detection of the molecular target to which the label is attached	OBI developer call, 3-12-12	Determination of the amount of phycoerytherin label present in a cell population stained with anti-CD8-PE in order to determine the percentage of CD8+ T cells present	Matthew Brush					subclass		assay									molecular-labeled material	measurement datum	molecular-labeled material			
OBI:0600020	histological assay		pending final vetting	histology|histopathology	An assay that uses visual examination of cells or tissue (or images of them) to make an assessment regarding a quality of the cells or tissue. This assay can include steps of staining, imaging, and judgement.	OBI branch derived	the counting of the number of cells with fluorescent label at their surface to determine the percentage of the population which was activated	Helen Parkinson|Adam Witney					subclass		assay	histological sample preparation	imaging assay									(cell or 'organ section')			
OBI:0600025	substance detection assay		pending final vetting		An assay that detects a specified substance	OBI branch derived	the detection of phycoerytherin by means of flow cytometry	Kevin Clancy					subclass		assay			material entity							measurement datum				
OBI:0600026	longitudinal mass measurement assay		metadata complete		An assay that measures the mass of a material at two or more time points	OBI branch derived	The comparison of the weight of vaccinated and non-vaccinated mice after infection with influenza A over 6 weeks post-infection	Helen Parkinson					subclass		assay									material entity	mass measurement datum				
OBI:0600031	enzyme-linked immunospot assay			ELISPOT assay	A cytometry assay in which cells are cultured on a surface coated with a capture antibody binding a secretory material of interest which subsequently gets stained resulting in a spot for each cell producing the secretory material of interest.	IEDB	Determination of the frequency of cells producing IFN-gamma in response to viral peptides by placing effector cells on a anti IFN-gamma coated plate, and adding antigen presenting cells pulsed with a peptide. After washing, the bound IFN-gamma is detected with a secondary antibody linked to a dye that visualizes as one spot per cell.	IEDB					subclass	logical definition does not capture details of processing	cytometry assay			cultured cell population				immunoglobulin complex, circulating							
OBI:0600045	3D structure determination assay				An assay that determines the 3-dimensional configuration of an input material.	IEDB	The use of X-ray crystallography to determine the 3D coordinates of atoms in a protein.	IEDB					equivalent		assay										3D structural organization datum				
OBI:0600047	sequencing assay		pending final vetting		An assay the uses chemical or biochemical means to infer the sequence of a biomaterial	OBI branch derived	The use of the Sanger method of DNA sequencing to determine the order of the nucleotides in a DNA template	PlanAndPlannedProcess Branch					equivalent		assay			('nucleic acid extract' or ('has part' some protein))			('protein sequencer' or 'nucleic acid sequencer' or 'DNA sequencer')				sequence data	region			
OBI:1110207	assay detecting IFN-gamma production		ready for release	IFNg release	An assay that determines information about the production of the cytokine interferon gamma	IEDB	An IFN-g ELISPOT is an assay detecting ifn-gamma production	Bjoern Peters					equivalent		assay										('measurement datum' and ('is about' some 'type II interferon production'))				
OBI:2100001	carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					carbon dioxide									
OBI:2100002	sodium(1+) assay				An analyte assay that measures the abundance of sodium(1+)	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					'sodium(1+)'									
OBI:2100003	creatinine assay				An analyte assay that measures the abundance of creatinine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					creatinine									
OBI:2100004	potassium(1+) assay				An analyte assay that measures the abundance of potassium(1+)	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					'potassium(1+)'									
OBI:2100005	basophil count assay				A cytometry assay that measures the count of basophils	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											basophil			
OBI:2100006	neutrophil count assay				A cytometry assay that measures the count of neutrophils	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											neutrophil			
OBI:2100007	eosinophil count assay				A cytometry assay that measures the count of eosinophils	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											eosinophil			
OBI:2100008	lymphocyte count assay				A cytometry assay that measures the count of lymphocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											lymphocyte			
OBI:2100009	monocyte count assay				A cytometry assay that measures the count of monocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											monocyte			
OBI:2100010	chloride assay				An analyte assay that measures the abundance of chloride	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					chloride									
OBI:2100011	erythrocyte count assay				A cytometry assay that measures the count of erythrocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											erythrocyte			
OBI:2100012	platelet count assay				A cytometry assay that measures the count of platelets	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											platelet			
OBI:2100013	leukocyte count assay				A cytometry assay that measures the count of leukocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											leukocyte			
OBI:2100014	hemoglobin assay				An analyte assay that measures the abundance of hemoglobin	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					hemoglobin									
OBI:2100015	phosphate ion assay				An analyte assay that measures the abundance of phosphate ion	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					phosphate ion									
OBI:2100016	alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					alanine aminotransferase									
OBI:2100017	alkaline phosphatase (human) assay				An analyte assay that measures the abundance of alkaline phosphatase (human)	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					'alkaline phosphatase (human)'									
OBI:2100018	bilirubin IXalpha assay				An analyte assay that measures the abundance of bilirubin IXalpha	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					bilirubin IXalpha									
OBI:2100019	aspartate aminotransferase (human) assay				An analyte assay that measures the abundance of aspartate aminotransferase (human)	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					'aspartate aminotransferase (human)'									
OBI:2100020	glucose assay				An analyte assay that measures the abundance of glucose	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					glucose									
OBI:2100021	magnesium cation assay				An analyte assay that measures the abundance of magnesium cation	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					magnesium cation									
OBI:2100022	albumin assay				An analyte assay that measures the abundance of albumin	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					albumin									
OBI:2100023	protein assay				An analyte assay that measures the abundance of protein	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					protein									
OBI:2100024	calcium cation assay				An analyte assay that measures the abundance of calcium cation	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					calcium cation									
OBI:2100025	creatine kinase assay				An analyte assay that measures the abundance of creatine kinase	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					creatine kinase									
OBI:2100026	nucleate erythrocyte count assay				A cytometry assay that measures the count of nucleate erythrocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											nucleate erythrocyte			
OBI:2100027	segmented neutrophil of bone marrow count assay				A cytometry assay that measures the count of segmented neutrophil of bone marrows	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											segmented neutrophil of bone marrow			
OBI:2100028	lactate dehydrogenase complex assay				An assay that measures lactate dehydrogenase complex	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		assay											lactate dehydrogenase complex			
OBI:2100029	triglyceride assay				An analyte assay that measures the abundance of triglyceride	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					triglyceride									
OBI:2100030	high-density lipoprotein cholesterol assay				An analyte assay that measures the abundance of high-density lipoprotein cholesterol	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					high-density lipoprotein cholesterol									
OBI:2100031	cholesterol assay				An analyte assay that measures the abundance of cholesterol	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					cholesterol									
OBI:2100032	low-density lipoprotein cholesterol assay				An analyte assay that measures the abundance of low-density lipoprotein cholesterol	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					low-density lipoprotein cholesterol									
OBI:2100033	thyroid stimulating hormone assay				An analyte assay that measures the abundance of thyroid stimulating hormone	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					thyroid stimulating hormone									
OBI:2100034	prostate-specific antigen assay				An analyte assay that measures the abundance of prostate-specific antigen	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					prostate-specific antigen									
OBI:2100035	thyroxine assay				An analyte assay that measures the abundance of thyroxine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					thyroxine									
OBI:2100036	elemental oxygen assay				An analyte assay that measures the abundance of elemental oxygen	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					elemental oxygen									
OBI:2100037	folic acids assay				An analyte assay that measures the abundance of folic acids	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					folic acids									
OBI:2100038	reticulocyte count assay				A cytometry assay that measures the count of reticulocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											reticulocyte			
OBI:2100039	osmolality assay				An assay that measures osmolality	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		assay											osmolality			
OBI:2100040	methemoglobin assay				An analyte assay that measures the abundance of methemoglobin	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					methemoglobin									
OBI:2100041	cytosolic creatine kinase complex, MB-type assay				An assay that measures cytosolic creatine kinase complex, MB-type	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		assay											cytosolic creatine kinase complex, MB-type			
OBI:2100042	rac-lactic acid assay				An assay that measures rac-lactic acid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		assay											rac-lactic acid			
OBI:2100043	hydrogencarbonate assay				An analyte assay that measures the abundance of hydrogencarbonate	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					hydrogencarbonate									
OBI:2100044	vancomycin assay				An analyte assay that measures the abundance of vancomycin	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					vancomycin									
OBI:2100045	tobramycin assay				An analyte assay that measures the abundance of tobramycin	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					tobramycin									
OBI:2100046	3,3',5'-triiodothyronine assay				An analyte assay that measures the abundance of 3,3',5'-triiodothyronine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					""3,3',5'-triiodothyronine""									
OBI:2100047	C-reactive protein assay				An analyte assay that measures the abundance of C-reactive protein	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					C-reactive protein									
OBI:2100048	megakaryocyte count assay				A cytometry assay that measures the count of megakaryocytes	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											megakaryocyte			
OBI:2100049	mesothelial cell count assay				A cytometry assay that measures the count of mesothelial cells	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											mesothelial cell			
OBI:2100050	macrophage count assay				A cytometry assay that measures the count of macrophages	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay											macrophage			
OBI:2100051	3-hydroxybutyric acid assay				An analyte assay that measures the abundance of 3-hydroxybutyric acid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	equivalent		analyte assay					3-hydroxybutyric acid									
OBI:2100052	panel5 venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a panel5 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100053	panel5 venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a panel5 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100054	panel5 venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a panel5 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100055	panel5 venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a panel5 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100056	automated differential venous blood basophil count assay				A cytometry assay that measures the count of basophils in venous blood as part of a automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								basophil			
OBI:2100057	automated differential venous blood neutrophil count assay				A cytometry assay that measures the count of neutrophils in venous blood as part of a automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								neutrophil			
OBI:2100058	automated differential venous blood eosinophil count assay				A cytometry assay that measures the count of eosinophils in venous blood as part of a automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								eosinophil			
OBI:2100059	automated differential venous blood lymphocyte count assay				A cytometry assay that measures the count of lymphocytes in venous blood as part of a automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								lymphocyte			
OBI:2100060	automated differential venous blood monocyte count assay				A cytometry assay that measures the count of monocytes in venous blood as part of a automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								monocyte			
OBI:2100061	venous blood chloride assay				An analyte assay that measures the abundance of chloride in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		chloride									
OBI:2100062	CBC with automated differential venous blood RBC count assay				A cytometry assay that measures the count of RBCs in venous blood as part of a CBC with automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100063	CBC with automated differential venous blood platelet count assay				A cytometry assay that measures the count of platelets in venous blood as part of a CBC with automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								platelet			
OBI:2100064	CBC with automated differential venous blood WBC count assay				A cytometry assay that measures the count of WBCs in venous blood as part of a CBC with automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								leukocyte			
OBI:2100065	CBC with automated differential venous blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in venous blood as part of a CBC with automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100066	CBC with automated differential venous blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in venous blood as part of a CBC with automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hemoglobin									
OBI:2100067	venous blood phosphate assay				An analyte assay that measures the abundance of phosphate in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		phosphate ion									
OBI:2100068	liver injury venous blood alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a liver injury order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alanine aminotransferase									
OBI:2100069	liver injury venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a liver injury order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'alkaline phosphatase (human)'									
OBI:2100070	liver injury venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a liver injury order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100071	liver injury venous blood human aspartate aminotransferase assay				An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a liver injury order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'aspartate aminotransferase (human)'									
OBI:2100072	venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100073	venous blood magnesium assay				An analyte assay that measures the abundance of magnesium in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		magnesium cation									
OBI:2100074	CBC venous blood RBC count assay				A cytometry assay that measures the count of RBCs in venous blood as part of a CBC order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100075	CBC venous blood WBC count assay				A cytometry assay that measures the count of WBCs in venous blood as part of a CBC order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								leukocyte			
OBI:2100076	CBC venous blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in venous blood as part of a CBC order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100077	CBC venous blood platelet count assay				A cytometry assay that measures the count of platelets in venous blood as part of a CBC order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								platelet			
OBI:2100078	CBC venous blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in venous blood as part of a CBC order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hemoglobin									
OBI:2100079	corrected venous blood leukocyte count assay				A cytometry assay that measures the count of leukocytes in venous blood as part of a corrected order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								leukocyte			
OBI:2100080	liver evaluation venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100081	liver evaluation venous blood globulin assay				An analyte assay that measures the abundance of globulin in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		globulin type									
OBI:2100082	liver evaluation venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100083	liver evaluation venous blood human aspartate aminotransferase assay				An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		aspartate aminotransferase (human)									
OBI:2100084	liver evaluation venous blood alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alanine aminotransferase									
OBI:2100085	liver evaluation venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alkaline phosphatase (human)									
OBI:2100086	liver evaluation venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a liver evaluation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100087	basic metabolic panel venous blood chloride assay				An analyte assay that measures the abundance of chloride in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		chloride									
OBI:2100088	basic metabolic panel venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100089	basic metabolic panel venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100090	basic metabolic panel venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100091	basic metabolic panel venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100092	basic metabolic panel venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100093	basic metabolic panel venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a basic metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100094	venous blood creatine kinase assay				An analyte assay that measures the abundance of creatine kinase in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatine kinase									
OBI:2100095	venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100096	venous blood ferritin assay				An assay that measures ferritin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								ferritin complex			
OBI:2100097	total venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100098	venous blood iron assay				An analyte assay that measures the abundance of iron in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		iron cation									
OBI:2100099	CBC with manual differential venous blood band neutrophil count assay				A cytometry assay that measures the count of band neutrophils in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								band form neutrophil			
OBI:2100100	CBC with manual differential venous blood WBC count assay				A cytometry assay that measures the count of WBCs in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								leukocyte			
OBI:2100101	CBC with manual differential venous blood eosinophil count assay				A cytometry assay that measures the count of eosinophils in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								eosinophil			
OBI:2100102	CBC with manual differential venous blood lymphocyte count assay				A cytometry assay that measures the count of lymphocytes in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								lymphocyte			
OBI:2100103	CBC with manual differential venous blood nucleated RBC count assay				A cytometry assay that measures the count of nucleated RBCs in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								nucleate erythrocyte			
OBI:2100104	CBC with manual differential venous blood monocyte count assay				A cytometry assay that measures the count of monocytes in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								monocyte			
OBI:2100105	CBC with manual differential venous blood segmented neutrophil count assay				A cytometry assay that measures the count of segmented neutrophils in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								segmented neutrophil of bone marrow			
OBI:2100106	CBC with manual differential venous blood basophil count assay				A cytometry assay that measures the count of basophils in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								basophil			
OBI:2100107	venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100108	cardiac enzymes venous blood creatine kinase assay				An analyte assay that measures the abundance of creatine kinase in venous blood as part of a cardiac enzymes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatine kinase									
OBI:2100109	venous blood haptoglobin assay				An analyte assay that measures the abundance of haptoglobin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		haptoglobin									
OBI:2100110	venous blood lactate dehydrogenase assay				An assay that measures lactate dehydrogenase in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								lactate dehydrogenase complex			
OBI:2100111	venous blood prealbunin assay				An analyte assay that measures the abundance of prealbunin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		transthyretin									
OBI:2100112	lipid panel venous blood triglyceride assay				An analyte assay that measures the abundance of triglyceride in venous blood as part of a lipid panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		triglyceride									
OBI:2100113	lipid panel venous blood high density lipoprotein assay				An analyte assay that measures the abundance of high density lipoprotein in venous blood as part of a lipid panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		high-density lipoprotein cholesterol									
OBI:2100114	lipid panel venous blood cholesterol assay				An analyte assay that measures the abundance of cholesterol in venous blood as part of a lipid panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		cholesterol									
OBI:2100115	lipid panel venous blood low density lipoprotein assay				An analyte assay that measures the abundance of low density lipoprotein in venous blood as part of a lipid panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		low-density lipoprotein cholesterol									
OBI:2100116	venous blood hemoglobin A1c assay				An assay that measures hemoglobin A1c in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								hemoglobin A1c			
OBI:2100117	venous blood uric acid assay				An analyte assay that measures the abundance of uric acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		uric acid									
OBI:2100118	total venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100119	venous blood thyroid stimulating hormone assay				An analyte assay that measures the abundance of thyroid stimulating hormone in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		thyroid stimulating hormone									
OBI:2100120	venous blood prostate specific antigen assay				An analyte assay that measures the abundance of prostate specific antigen in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		prostate-specific antigen									
OBI:2100121	24 hour total urine volume assay				An assay that measures volume in urine as part of a 24 hour total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			urine specimen								volume			
OBI:2100122	T4 uptake venous blood T4 assay				An analyte assay that measures the abundance of T4 in venous blood as part of a T4 uptake order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		thyroxine									
OBI:2100123	arterial blood glucose assay				An analyte assay that measures the abundance of glucose in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		glucose									
OBI:2100124	CBC with manual differential venous blood cell count assay				A cytometry assay that measures the count of cells in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								cell			
OBI:2100125	hemoglobin oxygen saturation arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a hemoglobin oxygen saturation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100126	hemoglobin oxygen saturation arterial blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a hemoglobin oxygen saturation order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hemoglobin									
OBI:2100127	inpatient profile venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a inpatient profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100128	inpatient profile venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a inpatient profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100129	inpatient profile venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a inpatient profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100130	inpatient profile venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a inpatient profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100131	venous blood folic acid assay				An analyte assay that measures the abundance of folic acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		folic acids									
OBI:2100132	count venous blood reticulocyte count assay				A cytometry assay that measures the count of reticulocytes in venous blood as part of a count order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								reticulocyte			
OBI:2100133	venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100134	venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100135	venous blood transferrin assay				An analyte assay that measures the abundance of transferrin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		serotransferrin									
OBI:2100136	venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100137	random electrolytes urine sodium assay				An analyte assay that measures the abundance of sodium in urine as part of a random electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		'sodium(1+)'									
OBI:2100138	random electrolytes urine potassium assay				An analyte assay that measures the abundance of potassium in urine as part of a random electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		'potassium(1+)'									
OBI:2100139	urine creatinine assay				An analyte assay that measures the abundance of creatinine in urine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		creatinine									
OBI:2100140	urine osmolality assay				An assay that measures osmolality in urine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			urine specimen								osmolality			
OBI:2100141	cooximitery arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a cooximitery order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100142	cooximitery arterial blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a cooximitery order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hemoglobin									
OBI:2100143	cooximitery arterial blood methemoglobin assay				An analyte assay that measures the abundance of methemoglobin in arterial blood as part of a cooximitery order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		methemoglobin									
OBI:2100144	electrolytes urine sodium assay				An analyte assay that measures the abundance of sodium in urine as part of a electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		'sodium(1+)'									
OBI:2100145	electrolytes urine potassium assay				An analyte assay that measures the abundance of potassium in urine as part of a electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		'potassium(1+)'									
OBI:2100146	Biosite cardiac panel arterial blood creatine kinase MB assay				An assay that measures creatine kinase MB in arterial blood as part of a Biosite cardiac panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								cytosolic creatine kinase complex, MB-type			
OBI:2100147	venous blood fibrinogen assay				An assay that measures fibrinogen in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								fibrinogen complex			
OBI:2100148	comprehensive metabolic panel venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100149	comprehensive metabolic panel venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100150	comprehensive metabolic panel venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100151	comprehensive metabolic panel venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100152	comprehensive metabolic panel venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100153	comprehensive metabolic panel venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100154	comprehensive metabolic panel venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'alkaline phosphatase (human)'									
OBI:2100155	comprehensive metabolic panel venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100156	comprehensive metabolic panel venous blood chloride assay				An analyte assay that measures the abundance of chloride in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		chloride									
OBI:2100157	comprehensive metabolic panel venous blood human aspartate aminotransferase assay				An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'aspartate aminotransferase (human)'									
OBI:2100158	comprehensive metabolic panel venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100159	comprehensive metabolic panel venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100160	comprehensive metabolic panel venous blood alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a comprehensive metabolic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alanine aminotransferase									
OBI:2100161	venous blood LDH assay				An assay that measures LDH in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								lactate dehydrogenase complex			
OBI:2100162	venous blood creatine kinase MB assay				An assay that measures creatine kinase MB in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								cytosolic creatine kinase complex, MB-type			
OBI:2100163	venous blood lactic acid assay				An assay that measures lactic acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								rac-lactic acid			
OBI:2100164	venous blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100165	venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100166	blood gas venous blood oxygen assay				An analyte assay that measures the abundance of oxygen in venous blood as part of a blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		elemental oxygen									
OBI:2100167	ionized venous blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in venous blood as part of a ionized order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100168	blood gas venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100169	blood gas venous blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in venous blood as part of a blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hydrogencarbonate									
OBI:2100170	arterial blood creatinine assay				An analyte assay that measures the abundance of creatinine in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		creatinine									
OBI:2100171	venous blood tacrolimus assay				An analyte assay that measures the abundance of tacrolimus in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		tacrolimus hydrate									
OBI:2100172	random venous blood vancomycin assay				An analyte assay that measures the abundance of vancomycin in venous blood as part of a random order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		vancomycin									
OBI:2100173	venous blood mycophenolic acid assay				An analyte assay that measures the abundance of mycophenolic acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		mycophenolic acid									
OBI:2100174	non-vented blood gas arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a non-vented blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100175	non-vented blood gas arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a non-vented blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100176	non-vented blood gas arterial blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a non-vented blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hydrogencarbonate									
OBI:2100177	quantitative venous blood IgG assay				An assay that measures IgG in venous blood as part of a quantitative order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								IgG immunoglobulin complex			
OBI:2100178	quantitative venous blood IgM assay				An assay that measures IgM in venous blood as part of a quantitative order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								IgM immunoglobulin complex			
OBI:2100179	quantitative venous blood IgA assay				An assay that measures IgA in venous blood as part of a quantitative order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								IgA immunoglobulin complex			
OBI:2100180	arterial blood sodium assay				An analyte assay that measures the abundance of sodium in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'sodium(1+)'									
OBI:2100181	arterial blood potassium assay				An analyte assay that measures the abundance of potassium in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'potassium(1+)'									
OBI:2100182	ionized arterial blood calcium assay				An analyte assay that measures the abundance of calcium in arterial blood as part of a ionized order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		calcium cation									
OBI:2100183	vented blood gas arterial blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a vented blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hydrogencarbonate									
OBI:2100184	vented blood gas arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a vented blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100185	vented blood gas arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a vented blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100186	arterial blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			arterial blood specimen								erythrocyte			
OBI:2100187	arterial blood chloride assay				An analyte assay that measures the abundance of chloride in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		chloride									
OBI:2100188	arterial blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hemoglobin									
OBI:2100189	GEM premier blood gas venous blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100190	GEM premier blood gas venous blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100191	GEM premier blood gas venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100192	GEM premier blood gas venous blood oxygen assay				An analyte assay that measures the abundance of oxygen in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		elemental oxygen									
OBI:2100193	GEM premier blood gas venous blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hemoglobin									
OBI:2100194	GEM premier blood gas venous blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hydrogencarbonate									
OBI:2100195	GEM premier blood gas venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100196	GEM premier blood gas venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100197	GEM premier blood gas venous blood lactic acid assay				An assay that measures lactic acid in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								rac-lactic acid			
OBI:2100198	GEM premier blood gas venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a GEM premier blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100199	trough venous blood tobramycin assay				An analyte assay that measures the abundance of tobramycin in venous blood as part of a trough order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		tobramycin									
OBI:2100200	random venous blood tobramycin assay				An analyte assay that measures the abundance of tobramycin in venous blood as part of a random order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		tobramycin									
OBI:2100201	CBC with manual differential venous blood metamyelocyte count assay				A cytometry assay that measures the count of metamyelocytes in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								metamyelocyte			
OBI:2100202	arterial blood lactic acid assay				An assay that measures lactic acid in arterial blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								rac-lactic acid			
OBI:2100203	venous blood 25-hydroxyvitamin D2 assay				An analyte assay that measures the abundance of 25-hydroxyvitamin D2 in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		25-hydroxyvitamin D2									
OBI:2100204	venous blood digoxin assay				An analyte assay that measures the abundance of digoxin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		digoxin									
OBI:2100205	urine protein assay				An analyte assay that measures the abundance of protein in urine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		protein									
OBI:2100206	venous blood tobramycin assay				An analyte assay that measures the abundance of tobramycin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		tobramycin									
OBI:2100207	CBC with manual differential venous blood myelocyte count assay				A cytometry assay that measures the count of myelocytes in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		myelocyte count assay			venous blood specimen								myelocyte			
OBI:2100208	SPEP protein electrophoresis venous blood beta-globin assay				An analyte assay that measures the abundance of beta-globin in venous blood as part of a SPEP protein electrophoresis order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		beta-globin									
OBI:2100209	SPEP protein electrophoresis venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a SPEP protein electrophoresis order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100210	SPEP protein electrophoresis venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a SPEP protein electrophoresis order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100211	trough venous blood vancomycin assay				An analyte assay that measures the abundance of vancomycin in venous blood as part of a trough order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		vancomycin									
OBI:2100212	hepatic panel venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a hepatic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100213	hepatic panel venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a hepatic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100214	hepatic panel venous blood alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a hepatic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alanine aminotransferase									
OBI:2100215	hepatic panel venous blood human aspartate aminotransferase assay				An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a hepatic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'aspartate aminotransferase (human)'									
OBI:2100216	hepatic panel venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a hepatic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100217	hepatic panel venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a hepatic panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'alkaline phosphatase (human)'									
OBI:2100218	estimated venous blood glomerular filtration assay				An assay that measures glomerular filtration in venous blood as part of a estimated order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								glomerular filtration			
OBI:2100219	DT60 venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a DT60 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100220	fasting venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a fasting order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100221	random venous blood amikacin assay				An analyte assay that measures the abundance of amikacin in venous blood as part of a random order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		amikacin									
OBI:2100222	venous blood ammonia assay				An analyte assay that measures the abundance of ammonia in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		ammonia									
OBI:2100223	venous blood GGT assay				An analyte assay that measures the abundance of GGT in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein-glutamine gamma-glutamyltransferase									
OBI:2100224	chem11 venous blood phosphate assay				An analyte assay that measures the abundance of phosphate in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		phosphate ion									
OBI:2100225	chem11 venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100226	chem11 venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100227	chem11 venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100228	chem11 venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100229	chem11 venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100230	chem11 venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100231	chem11 venous blood magnesium assay				An analyte assay that measures the abundance of magnesium in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		magnesium cation									
OBI:2100232	chem11 venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100233	chem11 venous blood chloride assay				An analyte assay that measures the abundance of chloride in venous blood as part of a chem11 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		chloride									
OBI:2100234	total venous blood IgE assay				An assay that measures IgE in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								IgE immunoglobulin complex			
OBI:2100235	chem16 venous blood human aspartate aminotransferase assay				An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'aspartate aminotransferase (human)'									
OBI:2100236	chem16 venous blood creatinine assay				An analyte assay that measures the abundance of creatinine in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		creatinine									
OBI:2100237	chem16 venous blood magnesium assay				An analyte assay that measures the abundance of magnesium in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		magnesium cation									
OBI:2100238	chem16 venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100239	chem16 venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100240	chem16 venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100241	chem16 venous blood triglyceride assay				An analyte assay that measures the abundance of triglyceride in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		triglyceride									
OBI:2100242	chem16 venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100243	chem16 venous blood phosphate assay				An analyte assay that measures the abundance of phosphate in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		phosphate ion									
OBI:2100244	chem16 venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'alkaline phosphatase (human)'									
OBI:2100245	chem16 venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100246	chem16 venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100247	chem16 venous blood chloride assay				An analyte assay that measures the abundance of chloride in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		chloride									
OBI:2100248	chem16 venous blood alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alanine aminotransferase									
OBI:2100249	chem16 venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a chem16 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100250	POC chem8 arterial blood glucose assay				An analyte assay that measures the abundance of glucose in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		glucose									
OBI:2100251	POC chem8 arterial blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		calcium cation									
OBI:2100252	POC chem8 arterial blood potassium assay				An analyte assay that measures the abundance of potassium in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'potassium(1+)'									
OBI:2100253	POC chem8 arterial blood sodium assay				An analyte assay that measures the abundance of sodium in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'sodium(1+)'									
OBI:2100254	POC chem8 arterial blood creatinine assay				An analyte assay that measures the abundance of creatinine in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		creatinine									
OBI:2100255	POC chem8 arterial blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			arterial blood specimen								erythrocyte			
OBI:2100256	POC chem8 arterial blood chloride assay				An analyte assay that measures the abundance of chloride in arterial blood as part of a POC chem8 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		chloride									
OBI:2100257	peak venous blood tobramycin assay				An analyte assay that measures the abundance of tobramycin in venous blood as part of a peak order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		tobramycin									
OBI:2100258	24 hour urine creatinine assay				An analyte assay that measures the abundance of creatinine in urine as part of a 24 hour order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		creatinine									
OBI:2100259	intact venous blood PTH assay				An analyte assay that measures the abundance of PTH in venous blood as part of a intact order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		prostate-specific antigen									
OBI:2100260	total venous blood PSA assay				An analyte assay that measures the abundance of PSA in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		prostate-specific antigen									
OBI:2100261	total venous blood T3 assay				An analyte assay that measures the abundance of T3 in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		""3,3',5'-triiodothyronine""									
OBI:2100262	24 hour urine protein assay				An analyte assay that measures the abundance of protein in urine as part of a 24 hour order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		protein									
OBI:2100263	total venous blood cholesterol assay				An analyte assay that measures the abundance of cholesterol in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		cholesterol									
OBI:2100264	venous blood triglyceride assay				An analyte assay that measures the abundance of triglyceride in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		triglyceride									
OBI:2100265	tube 4 count cerebrospinal fluid cell count assay				A cytometry assay that measures the count of cells in cerebrospinal fluid as part of a tube 4 count order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								cell			
OBI:2100266	cerebrospinal fluid protein assay				An analyte assay that measures the abundance of protein in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			cerebrospinal fluid specimen		protein									
OBI:2100267	cerebrospinal fluid glucose assay				An analyte assay that measures the abundance of glucose in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			cerebrospinal fluid specimen		glucose									
OBI:2100268	tube 1 count cerebrospinal fluid cell count assay				A cytometry assay that measures the count of cells in cerebrospinal fluid as part of a tube 1 count order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								cell			
OBI:2100269	venous blood dehydroepiandrosterone assay				An analyte assay that measures the abundance of dehydroepiandrosterone in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		dehydroepiandrosterone									
OBI:2100270	venous blood cortisol assay				An analyte assay that measures the abundance of cortisol in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		cortisol									
OBI:2100271	ABL90 panel arterial blood sodium assay				An analyte assay that measures the abundance of sodium in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'sodium(1+)'									
OBI:2100272	ABL90 panel arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100273	ABL90 panel arterial blood glucose assay				An analyte assay that measures the abundance of glucose in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		glucose									
OBI:2100274	ABL90 panel arterial blood lactic acid assay				An assay that measures lactic acid in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								rac-lactic acid			
OBI:2100275	ABL90 panel arterial blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hemoglobin									
OBI:2100276	ABL90 panel arterial blood chloride assay				An analyte assay that measures the abundance of chloride in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		chloride									
OBI:2100277	ABL90 panel arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100278	ABL90 panel arterial blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			arterial blood specimen								erythrocyte			
OBI:2100279	ABL90 panel arterial blood calcium assay				An analyte assay that measures the abundance of calcium in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		calcium cation									
OBI:2100280	ABL90 panel arterial blood temperature assay				An assay that measures temperature in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								temperature			
OBI:2100281	ABL90 panel arterial blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hydrogencarbonate									
OBI:2100282	ABL90 panel arterial blood potassium assay				An analyte assay that measures the abundance of potassium in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'potassium(1+)'									
OBI:2100283	CBC with manual differential venous blood promyelocyte count assay				A cytometry assay that measures the count of promyelocytes in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								promyelocyte			
OBI:2100284	ABL90 panel venous blood glucose assay				An analyte assay that measures the abundance of glucose in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		glucose									
OBI:2100285	ABL90 panel venous blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hemoglobin									
OBI:2100286	ABL90 panel venous blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100287	ABL90 panel venous blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		carbon dioxide									
OBI:2100288	ABL90 panel venous blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100289	ABL90 panel venous blood sodium assay				An analyte assay that measures the abundance of sodium in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'sodium(1+)'									
OBI:2100290	ABL90 panel venous blood oxygen assay				An analyte assay that measures the abundance of oxygen in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		elemental oxygen									
OBI:2100291	ABL90 panel venous blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hydrogencarbonate									
OBI:2100292	ABL90 panel venous blood lactic acid assay				An assay that measures lactic acid in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								rac-lactic acid			
OBI:2100293	ABL90 panel venous blood chloride assay				An analyte assay that measures the abundance of chloride in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		chloride									
OBI:2100294	venous blood T4 assay				An analyte assay that measures the abundance of T4 in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		thyroxine									
OBI:2100295	free venous blood T4 assay				An analyte assay that measures the abundance of T4 in venous blood as part of a free order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		thyroxine									
OBI:2100296	ABL90 panel venous blood potassium assay				An analyte assay that measures the abundance of potassium in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'potassium(1+)'									
OBI:2100297	urine sodium assay				An analyte assay that measures the abundance of sodium in urine	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		'sodium(1+)'									
OBI:2100298	bone profile venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a bone profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100299	bone profile venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a bone profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100300	bone profile venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a bone profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'alkaline phosphatase (human)'									
OBI:2100301	bone profile venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a bone profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100302	bone profile venous blood phosphate assay				An analyte assay that measures the abundance of phosphate in venous blood as part of a bone profile order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		phosphate ion									
OBI:2100303	ABG/electrolytes arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a ABG/electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100304	ABG/electrolytes arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a ABG/electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100305	ABG/electrolytes arterial blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a ABG/electrolytes order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		calcium cation									
OBI:2100306	CBC with automated differential venous blood nucleated RBC count assay				A cytometry assay that measures the count of nucleated RBCs in venous blood as part of a CBC with automated differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								nucleate erythrocyte			
OBI:2100307	ABL90 panel venous blood methemoglobin assay				An analyte assay that measures the abundance of methemoglobin in venous blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		methemoglobin									
OBI:2100308	ABL90 panel arterial blood methemoglobin assay				An analyte assay that measures the abundance of methemoglobin in arterial blood as part of a ABL90 panel order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		methemoglobin									
OBI:2100309	venous blood valproic acid assay				An analyte assay that measures the abundance of valproic acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		valproic acid									
OBI:2100310	high sensitivity cardiac/neonatal venous blood c-reactive protein assay				An analyte assay that measures the abundance of c-reactive protein in venous blood as part of a high sensitivity cardiac/neonatal order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		C-reactive protein									
OBI:2100311	POC arterial blood creatinine assay				An analyte assay that measures the abundance of creatinine in arterial blood as part of a POC order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		creatinine									
OBI:2100312	GEM4000 ANLCOOX arterial blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hydrogencarbonate									
OBI:2100313	GEM4000 ANLCOOX arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100314	GEM4000 ANLCOOX arterial blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			arterial blood specimen								erythrocyte			
OBI:2100315	GEM4000 ANLCOOX arterial blood temperature assay				An assay that measures temperature in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								temperature			
OBI:2100316	GEM4000 ANLCOOX arterial blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hemoglobin									
OBI:2100317	GEM4000 ANLCOOX arterial blood potassium assay				An analyte assay that measures the abundance of potassium in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'potassium(1+)'									
OBI:2100318	GEM4000 ANLCOOX arterial blood glucose assay				An analyte assay that measures the abundance of glucose in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		glucose									
OBI:2100319	GEM4000 ANLCOOX arterial blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		calcium cation									
OBI:2100320	GEM4000 ANLCOOX arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100321	GEM4000 ANLCOOX arterial blood sodium assay				An analyte assay that measures the abundance of sodium in arterial blood as part of a GEM4000 ANLCOOX order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'sodium(1+)'									
OBI:2100322	ionized venous blood calcium assay				An analyte assay that measures the abundance of calcium in venous blood as part of a ionized order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100323	venous blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hemoglobin									
OBI:2100324	CBC with manual differential venous blood megakaryocyte count assay				A cytometry assay that measures the count of megakaryocytes in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								megakaryocyte			
OBI:2100325	non-cardiac venous blood c-reactive protein assay				An analyte assay that measures the abundance of c-reactive protein in venous blood as part of a non-cardiac order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		C-reactive protein									
OBI:2100326	intraoperative venous blood PTH assay				An analyte assay that measures the abundance of PTH in venous blood as part of a intraoperative order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		prostate-specific antigen									
OBI:2100327	venous blood parathyroid hormone assay				An analyte assay that measures the abundance of parathyroid hormone in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		parathyroid hormone									
OBI:2100328	total bodily fluid protein assay				An analyte assay that measures the abundance of protein in bodily fluid as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			bodily fluid specimen		protein									
OBI:2100329	bodily fluid glucose assay				An analyte assay that measures the abundance of glucose in bodily fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			bodily fluid specimen		glucose									
OBI:2100330	count bodily fluid cell count assay				A cytometry assay that measures the count of cells in bodily fluid as part of a count order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								cell			
OBI:2100331	manual differential bodily fluid segmented neutrophil count assay				A cytometry assay that measures the count of segmented neutrophils in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								segmented neutrophil of bone marrow			
OBI:2100332	manual differential bodily fluid mesothelial cell count assay				A cytometry assay that measures the count of mesothelial cells in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								mesothelial cell			
OBI:2100333	manual differential bodily fluid monocyte count assay				A cytometry assay that measures the count of monocytes in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								monocyte			
OBI:2100334	manual differential bodily fluid lymphocyte count assay				A cytometry assay that measures the count of lymphocytes in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								lymphocyte			
OBI:2100335	manual differential bodily fluid macrophage count assay				A cytometry assay that measures the count of macrophages in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								macrophage			
OBI:2100336	manual differential bodily fluid basophil count assay				A cytometry assay that measures the count of basophils in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								basophil			
OBI:2100337	manual differential bodily fluid eosinophil count assay				A cytometry assay that measures the count of eosinophils in bodily fluid as part of a manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								eosinophil			
OBI:2100338	liver function venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a liver function order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100339	liver function venous blood alanine aminotransferase assay				An analyte assay that measures the abundance of alanine aminotransferase in venous blood as part of a liver function order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		alanine aminotransferase									
OBI:2100340	liver function venous blood human aspartate aminotransferase assay				An analyte assay that measures the abundance of human aspartate aminotransferase in venous blood as part of a liver function order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'aspartate aminotransferase (human)'									
OBI:2100341	liver function venous blood albumin assay				An analyte assay that measures the abundance of albumin in venous blood as part of a liver function order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		albumin									
OBI:2100342	liver function venous blood protein assay				An analyte assay that measures the abundance of protein in venous blood as part of a liver function order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		protein									
OBI:2100343	liver function venous blood human alkaline phosphatase assay				An analyte assay that measures the abundance of human alkaline phosphatase in venous blood as part of a liver function order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		'alkaline phosphatase (human)'									
OBI:2100344	vitamin B12 and Folate venous blood folic acid assay				An analyte assay that measures the abundance of folic acid in venous blood as part of a vitamin B12 and Folate order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		folic acids									
OBI:2100345	bodily fluid cell count assay				A cytometry assay that measures the count of cells in bodily fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			bodily fluid specimen								cell			
OBI:2100346	venous blood reticulocyte count assay				A cytometry assay that measures the count of reticulocytes in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								reticulocyte			
OBI:2100347	bodily fluid cholesterol assay				An analyte assay that measures the abundance of cholesterol in bodily fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			bodily fluid specimen		cholesterol									
OBI:2100348	TSH reflex Free T4 venous blood thyroid stimulating hormone assay				An analyte assay that measures the abundance of thyroid stimulating hormone in venous blood as part of a TSH reflex Free T4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		thyroid stimulating hormone									
OBI:2100349	direct venous blood bilirubin assay				An analyte assay that measures the abundance of bilirubin in venous blood as part of a direct order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		bilirubin IXalpha									
OBI:2100350	free venous blood T3 assay				An analyte assay that measures the abundance of T3 in venous blood as part of a free order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		""3,3',5'-triiodothyronine""									
OBI:2100351	bodily fluid albumin assay				An analyte assay that measures the abundance of albumin in bodily fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			bodily fluid specimen		albumin									
OBI:2100352	bodily fluid triglyceride assay				An analyte assay that measures the abundance of triglyceride in bodily fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			bodily fluid specimen		triglyceride									
OBI:2100353	hemoglobin and hematocrit venous blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in venous blood as part of a hemoglobin and hematocrit order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								erythrocyte			
OBI:2100354	hemoglobin and hematocrit venous blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in venous blood as part of a hemoglobin and hematocrit order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hemoglobin									
OBI:2100355	venous blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		calcium cation									
OBI:2100356	venous blood temperature assay				An assay that measures temperature in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								temperature			
OBI:2100357	venous blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		hydrogencarbonate									
OBI:2100358	venous blood oxygen assay				An analyte assay that measures the abundance of oxygen in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		elemental oxygen									
OBI:2100359	venous blood osmolality assay				An assay that measures osmolality in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			venous blood specimen								osmolality			
OBI:2100360	liver fibrosis (chronic viral hepatitis) venous blood platelet count assay				A cytometry assay that measures the count of platelets in venous blood as part of a liver fibrosis (chronic viral hepatitis) order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								platelet			
OBI:2100361	venous blood T3 assay				An analyte assay that measures the abundance of T3 in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		""3,3',5'-triiodothyronine""									
OBI:2100362	CBC with manual differential venous blood neutrophil count assay				A cytometry assay that measures the count of neutrophils in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								neutrophil			
OBI:2100363	creatinine clearance urine creatinine assay				An analyte assay that measures the abundance of creatinine in urine as part of a creatinine clearance order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			urine specimen		creatinine									
OBI:2100364	venous blood beta hydroxybutryic acid assay				An analyte assay that measures the abundance of beta hydroxybutryic acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		3-hydroxybutyric acid									
OBI:2100365	venous blood megakaryocyte count assay				A cytometry assay that measures the count of megakaryocytes in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								megakaryocyte			
OBI:2100366	venous blood nucleated RBC count assay				A cytometry assay that measures the count of nucleated RBCs in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								nucleate erythrocyte			
OBI:2100367	venous blood WBC count assay				A cytometry assay that measures the count of WBCs in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								leukocyte			
OBI:2100368	automated count venous blood reticulocyte count assay				A cytometry assay that measures the count of reticulocytes in venous blood as part of a automated count order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								reticulocyte			
OBI:2100369	total venous blood homocysteine assay				An analyte assay that measures the abundance of homocysteine in venous blood as part of a total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		homocysteine									
OBI:2100370	venous blood Ceruloplasmin assay				An analyte assay that measures the abundance of Ceruloplasmin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		ceruloplasmin									
OBI:2100371	GEM4 arterial blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hydrogencarbonate									
OBI:2100372	GEM4 arterial blood lactic acid assay				An assay that measures lactic acid in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								rac-lactic acid			
OBI:2100373	GEM4 arterial blood hemoglobin assay				An analyte assay that measures the abundance of hemoglobin in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hemoglobin									
OBI:2100374	GEM4 arterial blood sodium assay				An analyte assay that measures the abundance of sodium in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'sodium(1+)'									
OBI:2100375	GEM4 arterial blood potassium assay				An analyte assay that measures the abundance of potassium in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		'potassium(1+)'									
OBI:2100376	GEM4 arterial blood temperature assay				An assay that measures temperature in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		assay			arterial blood specimen								temperature			
OBI:2100377	GEM4 arterial blood glucose assay				An analyte assay that measures the abundance of glucose in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		glucose									
OBI:2100378	GEM4 arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100379	GEM4 arterial blood hematocrit assay				A cytometry assay that measures the proportion of red blood cells in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			arterial blood specimen								erythrocyte			
OBI:2100380	GEM4 arterial blood ionized calcium assay				An analyte assay that measures the abundance of ionized calcium in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		calcium cation									
OBI:2100381	GEM4 arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a GEM4 order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100382	liver fibrosis (NAFLD) venous blood platelet count assay				A cytometry assay that measures the count of platelets in venous blood as part of a liver fibrosis (NAFLD) order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								platelet			
OBI:2100383	venous blood beta hydroxybutric acid assay				An analyte assay that measures the abundance of beta hydroxybutric acid in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		3-hydroxybutyric acid									
OBI:2100384	CBC with manual differential venous blood plasma cell count assay				A cytometry assay that measures the count of plasma cells in venous blood as part of a CBC with manual differential order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			venous blood specimen								plasma cell			
OBI:2100385	venous blood erythropoietin assay				An analyte assay that measures the abundance of erythropoietin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		erythropoietin									
OBI:2100386	blood gas arterial blood oxygen assay				An analyte assay that measures the abundance of oxygen in arterial blood as part of a blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		elemental oxygen									
OBI:2100387	blood gas arterial blood bicarbonate assay				An analyte assay that measures the abundance of bicarbonate in arterial blood as part of a blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		hydrogencarbonate									
OBI:2100388	blood gas arterial blood carbon dioxide assay				An analyte assay that measures the abundance of carbon dioxide in arterial blood as part of a blood gas order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			arterial blood specimen		carbon dioxide									
OBI:2100389	free/total venous blood PSA assay				An analyte assay that measures the abundance of PSA in venous blood as part of a free/total order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		prostate-specific antigen									
OBI:2100390	cerebrospinal fluid lymphocyte count assay				A cytometry assay that measures the count of lymphocytes in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								lymphocyte			
OBI:2100391	cerebrospinal fluid segmented neutrophil count assay				A cytometry assay that measures the count of segmented neutrophils in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								segmented neutrophil of bone marrow			
OBI:2100392	cerebrospinal fluid mesothelial cell count assay				A cytometry assay that measures the count of mesothelial cells in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								mesothelial cell			
OBI:2100393	cerebrospinal fluid macrophage count assay				A cytometry assay that measures the count of macrophages in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								macrophage			
OBI:2100394	cerebrospinal fluid basophil count assay				A cytometry assay that measures the count of basophils in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								basophil			
OBI:2100395	cerebrospinal fluid monocyte count assay				A cytometry assay that measures the count of monocytes in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								monocyte			
OBI:2100396	cerebrospinal fluid eosinophil count assay				A cytometry assay that measures the count of eosinophils in cerebrospinal fluid	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		cytometry assay			cerebrospinal fluid specimen								eosinophil			
OBI:2100397	venous blood beta-2-microglobulin assay				An analyte assay that measures the abundance of beta-2-microglobulin in venous blood	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		beta-2-microglobulin									
OBI:2100398	lipid panel reflex direct venous blood low density lipoprotein assay				An analyte assay that measures the abundance of low density lipoprotein in venous blood as part of a Lipid panel reflex direct order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		low-density lipoprotein cholesterol									
OBI:2100399	lipid panel reflex direct venous blood triglyceride assay				An analyte assay that measures the abundance of triglyceride in venous blood as part of a Lipid panel reflex direct order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		triglyceride									
OBI:2100400	lipid panel reflex direct venous blood cholesterol assay				An analyte assay that measures the abundance of cholesterol in venous blood as part of a Lipid panel reflex direct order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		cholesterol									
OBI:2100401	lipid panel reflex direct venous blood high density lipoprotein assay				An analyte assay that measures the abundance of high density lipoprotein in venous blood as part of a Lipid panel reflex direct order	PennTURBO team		Mark A. Miller, ORCID:0000-0001-9076-6066 & Chris Stoeckert, ORCID ORCID:0000-0002-5714-991X				https://github.com/obi-ontology/obi/issues/1253	subclass		analyte assay			venous blood specimen		high-density lipoprotein cholesterol									
OBI:2100402	pooled clone sequencing assay				A DNA sequencing assay in which the DNA input is derived from pooled clones (for example BACs and Fosmids) is sequenced.	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4049660/	Although a similar pooled clone sequencing method has recently been described by others for metagenome-derived medium-insert plasmids  and large-insert fosmids, to our knowledge, we are the first to report the pooled strategy for sequencing of large-insert metagenomic clones while also critically evaluating the performance of this pooled strategy by comparing the results to barcoded reference sequences of the same clones.	Dan Berrios, ORCID: 0000-0003-4312-9552			Bonita Lam	https://github.com/obi-ontology/obi/issues/1106	subclass		DNA sequencing assay			DNA extract			DNA sequencer				DNA sequence data				
OBI:9999994	chromium release assay				An in vitro cell killing assay in which radioactive chromium is absorbed by cells and released into supernatant when the cells die. The amount of radioactivity measured in the supernatant is a proxy for the number of cells that have died.		Autologous EBV-transformed B-LCL were used as target cells for the influenza virus-specific CTL assays. Equal volumes of target and effector cells were added to triplicate wells of 96-well tissue culture plates, and 1:2 serial dilutions of effectors were made, producing effector-to-target (E:T) ratios of 100:1, 50:1, 25:1, and 12.5:1. After a 4-h incubation of the effector cells with the target cells, supernatants were collected following brief centrifugation and transferred to polystyrene tubes to be counted with the LKB 1272 Clinigamma counter (Wallac). Percent specific killing was determined with the following equation: (experimental 51Cr release - spontaneous 51Cr release)/(maximum 51Cr release - spontaneous 51Cr release) x 100.	PlanAndPlannedProcess Branch|IEDB					subclass	logical definition is not capturing how chromium is utilized as a marker of cell death	in vitro cell killing assay		radioactivity detection						chromium-51