Merge pull request #107 from zivy/addingCD49aPE

Adding CD49a PE lymph node configuration.
IBEXImagingCommunity · Feb 15, 2024 · 5281271 · 5281271
2 parents bab49e8 + fcb3d98
commit 5281271
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diff --git a/data/reagent_resources.csv b/data/reagent_resources.csv
@@ -1073,3 +1073,4 @@ P70658,Primary Antibody,CXCR4,Mouse,Rabbit,IgG,polyclonal,Novus Biologicals,NB-1
 P56485,Primary Antibody,CXCR7,Mouse,Rabbit,IgG,polyclonal,Novus Biologicals,NBP2-24779G,DyLight 488,NA,Stock,Multiplexed 2D Imaging,4% PFA Fixed Frozen,Brain,Tumor,0.3%  Triton-X-100,NA,NA,Yes,0000-0002-6944-6997,NA,0000-0002-6944-6997
 Q9QXH4,Primary Antibody,CD11c,Mouse,Armenian Hamster,IgG,N418,BioLegend,117314,AF647,AB_492850,Stock,Multiplexed 2D Imaging,4% PFA Fixed Frozen,Brain,Tumor,0.3%  Triton-X-100,NA,NA,Yes,0000-0002-6944-6997,NA,0000-0002-6944-6997
 P03995,Primary Antibody,GFAP,Mouse,Mouse,IgG1,GA5,Thermo Fisher Scientific,41-9892-82,eF570,AB_2573656,Stock,Multiplexed 2D Imaging,4% PFA Fixed Frozen,Brain,Tumor,0.3%  Triton-X-100,NA,NA,Yes,0000-0002-6944-6997,NA,0000-0002-6944-6997
+P56199,Primary Antibody,CD49a,Human,Mouse,IgG1,TS2/7,BioLegend,328303,PE,AB_1236441,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lymph Node,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0003-4379-8967,NA,0000-0003-4379-8967
diff --git a/docs/supporting_material/CD49a_PE/0000-0003-4379-8967.md b/docs/supporting_material/CD49a_PE/0000-0003-4379-8967.md
@@ -0,0 +1,30 @@
+---
+layout: default
+---
+
+# Configurations
+
+| UniProt Accession Number   | Reagent Type     | Target Name / Protein Biomarker   | Target Species   | Host Organism   | Isotype   | Clonality   | Vendor    |   Catalog Number | Conjugate   | RRID       | Availability   | Method        | Tissue Preservation               | Target Tissue   | Tissue State   | Detergent         | Antigen Retrieval Conditions   | Dye Inactivation Conditions   | Recommend   | Agree                                                                                                                     | Disagree   | Contributor                                                  | Notes   |
+|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:--------------------------------------------------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:--------|
+| P56199                     | Primary Antibody | CD49a                             | Human            | Mouse           | IgG1      | TS2/7       | BioLegend |           328303 | PE          | AB_1236441 | Stock          | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node      | NA             | 0.3% Triton-X-100 | NA                             | 1 mg/ml LiBH4 15 minutes      | Yes         | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[3](#publications), [2](#publications), [1](#publications)] | NA         | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) |         |
+
+# Publications
+
+<a name="publications"></a>
+1. A. J. Radtke et al., "A Multi-scale, Multiomic Atlas of Human Normal and Follicular Lymphoma Lymph Nodes", *bioRxiv*, 2022, [doi: 10.1101/2022.06.03.494716](https://doi.org/10.1101/2022.06.03.494716).
+2. A. J. Radtke et al., "IBEX: an iterative immunolabeling and chemical bleaching
+ method for high-content imaging of diverse tissues", *Nat. Protoc.*, 17(2):378-401, 2022, [doi: 10.1038/s41596-021-00644-9](https://doi.org/10.1038/s41596-021-00644-9).
+
+    A. J. Radtke et al., "Accompanying dataset for: IBEX: An iterative immunolabeling and chemical bleaching method for high-content imaging of diverse tissues", [doi: 10.5281/zenodo.5244550](https://doi.org/10.5281/zenodo.5244551).
+
+3. A. J. Radtke et al., "IBEX: A versatile multiplex optical imaging approach for deep phenotyping and spatial analysis of cells in complex tissues", *Proc Natl Acad Sci*, 117(52):33455–33465, 2020, [doi:10.1073/pnas.2018488117](https://doi.org/10.1073/pnas.2018488117).
+
+
+# Additional Notes
+
+<a name="notes"></a>
+
+
+| Human lymph node: CD49a (cyan, catalog number 328303) and CD31 (red, catalog number 303133) |
+|:-------:|
+| ![](CD31_AF700_BioLegend_303133_CD49a_PE_BioLegend_328303.jpg) |
diff --git a/...ing_material/CD49a_PE/CD31_AF700_BioLegend_303133_CD49a_PE_BioLegend_328303.jpg b/...ing_material/CD49a_PE/CD31_AF700_BioLegend_303133_CD49a_PE_BioLegend_328303.jpg