diff --git a/data/reagent_resources.csv b/data/reagent_resources.csv index 9bf39b3..9b094f9 100644 --- a/data/reagent_resources.csv +++ b/data/reagent_resources.csv @@ -1198,4 +1198,11 @@ A0A8C6KR86,Primary Antibody,Peripherin 2,Turquoise Killifish,Rabbit,IgG,Polyclon O42583,Primary Antibody,Peripherin 2,African Clawed Frog (Xenopus laevis),Rabbit,IgG,Polyclonal,Proteintech,18109-1-AP,Unconjugated,AB_10665364,Stock,IBEX2D Manual,4% PFA Fixed Frozen,Retina,NA,0.1% Triton-X-100,pH 6 (10 mM Sodium Citrate) for 20 minutes in a pressure cooker,NA,Yes,0009-0000-2047-4228,NA,0009-0000-2047-4228 NA,Primary Antibody,Zpr-1,Turquoise Killifish,Mouse,IgG1,Monoclonal,ZIRC,ZDB-ATB-081002-43,Unconjugated,AB_10013803,Stock,IBEX2D Manual,4% PFA Fixed Frozen,Retina,NA,0.1% Triton-X-100,pH 6 (10 mM Sodium Citrate) for 20 minutes in a pressure cooker,NA,Yes,0009-0000-2047-4228,NA,0009-0000-2047-4228 NA,Primary Antibody,Zpr-3,African Clawed Frog (Xenopus laevis),Mouse,IgG1,Monoclonal,ZIRC,ZDB-ATB-081002-45,Unconjugated,AB_10013805,Stock,IBEX2D Manual,4% PFA Fixed Frozen,Retina,NA,0.1% Triton-X-100,pH 6 (10 mM Sodium Citrate) for 20 minutes in a pressure cooker,NA,Yes,0009-0000-2047-4228,NA,0009-0000-2047-4228 -NA,Primary Antibody,Zrf-1,Turquoise Killifish,Mouse,IgG1,Monoclonal,ZIRC,ZDB-ATB-081002-46,Unconjugated,AB_10013806,Stock,IBEX2D Manual,4% PFA Fixed Frozen,Retina,NA,0.1% Triton-X-100,pH 6 (10 mM Sodium Citrate) for 20 minutes in a pressure cooker,NA,Yes,0009-0000-2047-4228,NA,0009-0000-2047-4228 \ No newline at end of file +NA,Primary Antibody,Zrf-1,Turquoise Killifish,Mouse,IgG1,Monoclonal,ZIRC,ZDB-ATB-081002-46,Unconjugated,AB_10013806,Stock,IBEX2D Manual,4% PFA Fixed Frozen,Retina,NA,0.1% Triton-X-100,pH 6 (10 mM Sodium Citrate) for 20 minutes in a pressure cooker,NA,Yes,0009-0000-2047-4228,NA,0009-0000-2047-4228 +P24788,Primary Antibody,CD11b,Mouse,Rat,IgG2b,M1/70,BD Biosciences,557397,PE,AB_396680,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 +Q9QXH4,Primary Antibody,CD11c,Mouse,Armenian Hamster,IgG,N418,Thermo Fisher Scientific,MCD11c20,AF488,AB_10373244,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 +P06800,Primary Antibody,CD45,Mouse,Rat,IgG2b,30-F11,BioLegend,103144,AF594,AB_2563458,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,NA,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 +Q920G3,Primary Antibody,SiglecF,Mouse,Rat,IgG2a,E50-2440,BD Biosciences,552126,PE,AB_394341,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 +P62737,Primary Antibody,Alpha smooth muscle actin,Mouse,Mouse,IgG2a,1A4,Thermo Fisher Scientific,50-9760-82,eF660,AB_2574362,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 +P05089,Primary Antibody,Arginase-1,Mouse,Rabbit,IgG,D4E3M,Cell Signaling Technology,93668,Unconjugated,AB_2800207,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 +Q61830,Primary Antibody,CD206,Mouse,Rat,IgG2a,C068C2,BioLegend,141709,AF488,AB_10933252,Stock,IBEX2D Manual,1:4 Cytofix/Cytoperm Fixed Frozen,Lung,NA,0.3% Triton-X-100,NA,1 mg/ml LiBH4 15 minutes,Yes,0000-0001-5813-2581,NA,0000-0001-5813-2581 \ No newline at end of file diff --git a/docs/supporting_material/Alpha_smooth_muscle_actin_eF660/0000-0001-5813-2581.md b/docs/supporting_material/Alpha_smooth_muscle_actin_eF660/0000-0001-5813-2581.md new file mode 100644 index 0000000..310c7d3 --- /dev/null +++ b/docs/supporting_material/Alpha_smooth_muscle_actin_eF660/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:-------------------------|:-----------------|:------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| P62737 | Primary Antibody | Alpha smooth muscle actin | Mouse | Mouse | IgG2a | 1A4 | Thermo Fisher Scientific | 50-9760-82 | eF660 | AB_2574362 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:200 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/Arginase-1_Unconjugated/0000-0001-5813-2581.md b/docs/supporting_material/Arginase-1_Unconjugated/0000-0001-5813-2581.md new file mode 100644 index 0000000..f417ea1 --- /dev/null +++ b/docs/supporting_material/Arginase-1_Unconjugated/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:--------------------------|-----------------:|:-------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| P05089 | Primary Antibody | Arginase-1 | Mouse | Rabbit | IgG | D4E3M | Cell Signaling Technology | 93668 | Unconjugated | AB_2800207 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:50 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/CD11b_PE/0000-0001-5813-2581.md b/docs/supporting_material/CD11b_PE/0000-0001-5813-2581.md new file mode 100644 index 0000000..cac44ad --- /dev/null +++ b/docs/supporting_material/CD11b_PE/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:---------------|-----------------:|:------------|:----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| P24788 | Primary Antibody | CD11b | Mouse | Rat | IgG2b | M1/70 | BD Biosciences | 557397 | PE | AB_396680 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:100 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/CD11c_AF488/0000-0001-5813-2581.md b/docs/supporting_material/CD11c_AF488/0000-0001-5813-2581.md new file mode 100644 index 0000000..2d43518 --- /dev/null +++ b/docs/supporting_material/CD11c_AF488/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:-----------------|:----------|:------------|:-------------------------|:-----------------|:------------|:------------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| Q9QXH4 | Primary Antibody | CD11c | Mouse | Armenian Hamster | IgG | N418 | Thermo Fisher Scientific | MCD11c20 | AF488 | AB_10373244 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:200 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/CD206_AF488/0000-0001-5813-2581.md b/docs/supporting_material/CD206_AF488/0000-0001-5813-2581.md new file mode 100644 index 0000000..304a2eb --- /dev/null +++ b/docs/supporting_material/CD206_AF488/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:------------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| Q61830 | Primary Antibody | CD206 | Mouse | Rat | IgG2a | C068C2 | BioLegend | 141709 | AF488 | AB_10933252 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:100 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/CD45_AF594/0000-0001-5813-2581.md b/docs/supporting_material/CD45_AF594/0000-0001-5813-2581.md new file mode 100644 index 0000000..3117fb6 --- /dev/null +++ b/docs/supporting_material/CD45_AF594/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| P06800 | Primary Antibody | CD45 | Mouse | Rat | IgG2b | 30-F11 | BioLegend | 103144 | AF594 | AB_2563458 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | NA | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:20 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/CD68_AF647/0000-0001-5813-2581.md b/docs/supporting_material/CD68_AF647/0000-0001-5813-2581.md index cc679b4..390ba33 100644 --- a/docs/supporting_material/CD68_AF647/0000-0001-5813-2581.md +++ b/docs/supporting_material/CD68_AF647/0000-0001-5813-2581.md @@ -6,13 +6,16 @@ layout: default | 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 | |:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:--------------------|:-----------|:--------------------|:------------| -| P31996 | Primary Antibody | CD68 | Mouse | Rat | IgG2a | FA-11 | BioLegend | 137004 | AF647 | AB_2044002 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | +| P31996 | Primary Antibody | CD68 | Mouse | Rat | IgG2a | FA-11 | BioLegend | 137004 | AF647 | AB_2044002 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1,2](#notes) | # Publications + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). # Additional Notes 1. Validated by colocalization with macrophage markers F4/80 and CD206. +2. 1:100 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file diff --git a/docs/supporting_material/SiglecF_PE/0000-0001-5813-2581.md b/docs/supporting_material/SiglecF_PE/0000-0001-5813-2581.md new file mode 100644 index 0000000..a055c38 --- /dev/null +++ b/docs/supporting_material/SiglecF_PE/0000-0001-5813-2581.md @@ -0,0 +1,20 @@ +--- +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 | +|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:---------------|-----------------:|:------------|:----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:----------------------------------------------------------------------------------|:-----------|:-------------------------------------------------------------|:------------| +| Q920G3 | Primary Antibody | SiglecF | Mouse | Rat | IgG2a | E50-2440 | BD Biosciences | 552126 | PE | AB_394341 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lung | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) [[1](#publications)] | NA | [0000-0001-5813-2581](https://orcid.org/0000-0001-5813-2581) | [1](#notes) | + +# Publications + + +1. M. Vierhout et al., "A Novel Ex Vivo Approach for Investigating Profibrotic Macrophage Polarization Using Murine Precision-Cut Lung Slices", *bioRxiv*, 2024, [doi: 10.1101/2024.07.05.602278](https://doi.org/10.1101/2024.07.05.602278). + + +# Additional Notes + + +1. 1:50 dilution on precision-cut lung slices, see methods details in associated preprint. \ No newline at end of file