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Correcting data inconsistencies. #161

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Jul 4, 2024
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Correcting data inconsistencies. #161

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2 changes: 1 addition & 1 deletion data/reagent_resources.csv
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Expand Up @@ -722,7 +722,7 @@ P08670,Primary Antibody,Vimentin,Human,Mouse,IgG2a,O91D3,BioLegend,677807,AF647,
NA,Primary Antibody,Mycobacterium tuberculosis,Human,Rabbit,IgG,Polyclonal,Abcam,ab905,Unconjugated,AB_306965,Stock,IBEX2D Manual,FFPE,Lung,Infected,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,Yes,0000-0003-3697-5726,NA,0000-0003-3697-5726
NA,Primary Antibody,Mycobacterium tuberculosis Ag85B,Human,Rabbit,IgG,Polyclonal,Abcam,ab43019,Unconjugated,AB_776575,Stock,IBEX2D Manual,FFPE,Lung,Infected,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,Yes,0000-0003-3697-5726,NA,0000-0003-3697-5726
P05023,Primary Antibody,Sodium Potassium ATPase,Human,Rabbit,IgG,EP1845Y,Abcam,ab198367,AF647,AB_2916056,Stock,IBEX2D Manual,FFPE,Lung,Infected,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),1 mg/ml LiBH4 15 minutes,Yes,0000-0003-3697-5726,NA,0000-0003-3697-5726
P63158,Primary Antibody,HMGB-1,Mouse,Mouse,IgG2,3.00E+08,BioLegend,651406,AF594,NA,Stock,Multiplexed 2D Imaging,1:4 Cytofix/Cytoperm Fixed Frozen,Lymph Node,NA,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,Yes,0000-0002-5187-810X,NA,0000-0002-5187-810X
P63158,Primary Antibody,HMGB-1,Mouse,Mouse,IgG2,3E8,BioLegend,651406,AF594,NA,Stock,Multiplexed 2D Imaging,1:4 Cytofix/Cytoperm Fixed Frozen,Lymph Node,NA,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,Yes,0000-0002-5187-810X,NA,0000-0002-5187-810X
NA,Primary Antibody,Nuclear Pore Complex,Mouse,Mouse,IgG1,MAb414,BioLegend,682202,AF594,NA,Stock,Multiplexed 2D Imaging,1:4 Cytofix/Cytoperm Fixed Frozen,Lymph Node,NA,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,Yes,0000-0002-5187-810X,NA,0000-0002-5187-810X
P02302,Primary Antibody,Histone H3,Mouse,Mouse,IgG3,1B1-B2,BioLegend,819406,AF594,AB_2715803,Stock,Multiplexed 2D Imaging,1:4 Cytofix/Cytoperm Fixed Frozen,Lymph Node,NA,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,No,0000-0002-5187-810X,NA,0000-0002-5187-810X
Q64525,Primary Antibody,Histone H2B,Mouse,Rat,IgG2a,W17025A,BioLegend,606301,Unconjugated,AB_2728465,Stock,Multiplexed 2D Imaging,1:4 Cytofix/Cytoperm Fixed Frozen,Lymph Node,NA,0.3% Triton-X-100,pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML),NA,No,0000-0002-5187-810X,NA,0000-0002-5187-810X
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2 changes: 1 addition & 1 deletion docs/supporting_material/CD16.2_PE/0000-0002-7422-3237.md
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Expand Up @@ -6,7 +6,7 @@ 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 |
|:---------------------------|:-----------------|:----------------------------------|:-----------------|:-----------------|:----------|------------:|:----------|-----------------:|:------------|:-----------|:---------------|:--------------|:----------------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:-----------------------------------------|:-----------|:--------------------|:--------|
| A0A0B4J1G0 | Primary Antibody | CD16.2 | Mouse | Armenian Hamster | IgG | 9e+09 | BioLegend | 149503 | PE | AB_2565810 | Stock | IBEX2D Manual | AntigenFix (2h, 4 degrees) Fixed Frozen | Kidney | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0002-7422-3237](https://orcid.org/0000-0002-7422-3237) [[1](#publications)] | NA | [0000-0002-7422-3237](https://orcid.org/0000-0002-7422-3237) | |
| A0A0B4J1G0 | Primary Antibody | CD16.2 | Mouse | Armenian Hamster | IgG | 9E9 | BioLegend | 149503 | PE | AB_2565810 | Stock | IBEX2D Manual | AntigenFix (2h, 4 degrees) Fixed Frozen | Kidney | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | Yes | [0000-0002-7422-3237](https://orcid.org/0000-0002-7422-3237) [[1](#publications)] | NA | [0000-0002-7422-3237](https://orcid.org/0000-0002-7422-3237) | |

# Publications

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4 changes: 2 additions & 2 deletions docs/supporting_material/CD3_AF594/0000-0003-4379-8967.md
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Expand Up @@ -6,9 +6,9 @@ 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 |
|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:--------------------|:------------------|:-------------------------------|:----------------------------------------|:------------|:-------------------------------------------------------------|:-----------|:--------------------|:------------|
| P07766 | Primary Antibody | CD3 | Human | Mouse | IgG1 | UCHT1 | BioLegend | 300446 | AF594 | AB_2563236 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 for more than 120 minutes | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[3](#publications), [1](#publications)]; [0000-0003-1118-7432](https://orcid.org/0000-0003-1118-7432) | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | [1](#notes) |
| P07766 | Primary Antibody | CD3 | Human | Mouse | IgG1 | UCHT1 | BioLegend | 300446 | AF594 | AB_2563236 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 for more than 120 minutes | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[3](#publications), [1](#publications)] | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | [1](#notes) |
| P22646 | Primary Antibody | CD3 | Mouse | Rat | IgG2b | 17A2 | BioLegend | 100240 | AF594 | AB_2563427 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Thymus | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 for more than 120 minutes | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[3](#publications)] | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | [1](#notes) |
| P22646 | Primary Antibody | CD3 | Mouse | Rat | IgG2b | 17A2 | BioLegend | 100240 | AF594 | AB_2563427 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 for more than 120 minutes | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[3](#publications)] | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | [1](#notes) |
| P22646 | Primary Antibody | CD3 | Mouse | Rat | IgG2b | 17A2 | BioLegend | 100240 | AF594 | AB_2563427 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 for more than 120 minutes | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[3](#publications)]; [0000-0003-1118-7432](https://orcid.org/0000-0003-1118-7432) | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | [1](#notes) |
| P07766 | Primary Antibody | CD3 | Human | Mouse | IgG1 | UCHT1 | BioLegend | 300446 | AF594 | AB_2563236 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | Follicular Lymphoma | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 for more than 120 minutes | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[2](#publications)] | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | [1](#notes) |

# Publications
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2 changes: 1 addition & 1 deletion docs/supporting_material/CD3_Unconjugated/0000-0001-9561-4256.md
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|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:---------|:-----------------|:-------------|:----------|:---------------|:--------------|:----------------------|:----------------|:--------------------------|:------------------|:-------------------------------------------------------------------|:------------------------------|:------------|:--------------------|:-----------|:--------------------|:------------|
| P07766 | Primary Antibody | CD3 | Human | Rabbit | IgG | SP7 | Abcam | ab16669 | Unconjugated | AB_443425 | Stock | IBEX2D Manual | FFPE | Liver | Metastatic Ovarian Cancer | 0.3% Triton-X-100 | pH 9.5 for 15 minutes in a pressure cooker (Borg Decloaker BD1000) | NA | Yes | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) | NA | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) | [1](#notes) |
| P07766 | Primary Antibody | CD3 | Human | Rabbit | IgG | SP7 | Abcam | ab16669 | Unconjugated | AB_443425 | Stock | IBEX2D Manual | FFPE | Tonsil | Metastatic Ovarian Cancer | 0.3% Triton-X-100 | pH 9.5 for 15 minutes in a pressure cooker (Borg Decloaker BD1000) | NA | Yes | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) | NA | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) | [1](#notes) |
| G7NCB9 | Primary Antibody | CD3 | Rhesus Macaque | Mouse | IgG1 | F7.2.38 | Agilent Dako | M7254 | Unconjugated | AB_2631163 | Stock | Multiplexed 2D Imaging | FFPE | Lymph Node | Infected | 0.3% Triton-X-100 | pH 9.5 for 15 minutes in a pressure cooker (Borg Decloaker BD1000) | NA | Yes | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) [[1](#publications)] | NA | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) | [2](#notes) |
| G7NCB9 | Primary Antibody | CD3 | Rhesus Macaque | Mouse | IgG1 | F7.2.38 | Agilent | M7254 | Unconjugated | AB_2631163 | Stock | Multiplexed 2D Imaging | FFPE | Lymph Node | Infected | 0.3% Triton-X-100 | pH 9.5 for 15 minutes in a pressure cooker (Borg Decloaker BD1000) | NA | Yes | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) [[1](#publications)] | NA | [0000-0001-9561-4256](https://orcid.org/0000-0001-9561-4256) | [2](#notes) |

# Publications

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2 changes: 1 addition & 1 deletion docs/supporting_material/CD73_AF700/0000-0003-2634-6838.md
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| 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 |
|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:-----------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------------|:-------------------------------|:------------------------------|:------------|:--------------------|:-----------|:--------------------|:------------|
| Q61503 | Primary Antibody | CD73 | Mouse | Rat | IgG1 | TY/11.8 | BioLegend | 127230 | AF700 | AB_2800625 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | No | [0000-0003-2634-6838](https://orcid.org/0000-0003-2634-6838) | NA | 0000-0002-1461-0999 | [1](#notes) |
| Q61503 | Primary Antibody | CD73 | Mouse | Rat | IgG1 | TY/11.8 | BioLegend | 127230 | AF700 | AB_2800625 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes | No | [0000-0003-2634-6838](https://orcid.org/0000-0003-2634-6838) | NA | [0000-0003-2634-6838](https://orcid.org/0000-0003-2634-6838) | [1](#notes) |

# Publications

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2 changes: 1 addition & 1 deletion docs/supporting_material/HMGB-1_AF594/0000-0002-5187-810X.md
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| 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 |
|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|------------:|:----------|-----------------:|:------------|:-------|:---------------|:-----------------------|:----------------------------------|:----------------|:---------------|:------------------|:--------------------------------------------------------------|:------------------------------|:------------|:--------------------|:-----------|:--------------------|:------------|
| P63158 | Primary Antibody | HMGB-1 | Mouse | Mouse | IgG2 | 3e+08 | BioLegend | 651406 | AF594 | NA | Stock | Multiplexed 2D Imaging | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML) | NA | Yes | [0000-0002-5187-810X](https://orcid.org/0000-0002-5187-810X) | NA | [0000-0002-5187-810X](https://orcid.org/0000-0002-5187-810X) | [1](#notes) |
| P63158 | Primary Antibody | HMGB-1 | Mouse | Mouse | IgG2 | 3E8 | BioLegend | 651406 | AF594 | NA | Stock | Multiplexed 2D Imaging | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph Node | NA | 0.3% Triton-X-100 | pH 6 for 40 minutes at 95C (AR6 Akoya Biosciences AR600250ML) | NA | Yes | [0000-0002-5187-810X](https://orcid.org/0000-0002-5187-810X) | NA | [0000-0002-5187-810X](https://orcid.org/0000-0002-5187-810X) | [1](#notes) |

# Publications

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2 changes: 1 addition & 1 deletion docs/supporting_material/NK1.1_BV421/0000-0003-1431-1398.md
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| 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 |
|:---------------------------|:-----------------|:----------------------------------|:-----------------|:----------------|:----------|:------------|:----------|-----------------:|:------------|:------------|:---------------|:--------------|:----------------------------------|:----------------|:---------------|:------------|:-------------------------------|:---------------------------------|:------------|:-------------------------------------------------------------|:-----------|:--------------------|:------------|
| P30548 | Primary Antibody | NK1.1 | Mouse | Mouse | IgG2a | PK136 | BioLegend | 108731 | BV421 | AB_10895916 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Liver | NA | NA | NA | 1 mg/ml LiBH4 15 minutes + light | Yes | [0000-0003-1431-1398](https://orcid.org/0000-0003-1431-1398) [[1](#publications), [2](#publications)] | NA | [0000-0003-1431-1398](https://orcid.org/0000-0003-1431-1398) | [1](#notes) |
| P30548 | Primary Antibody | NK1.1 | Mouse | Mouse | IgG2a | PK136 | BioLegend | 108731 | BV421 | AB_10895916 | Stock | IBEX2D Manual | 1:4 Cytofix/Cytoperm Fixed Frozen | Lymph node | NA | 0.3% Triton-X-100 | NA | 1 mg/ml LiBH4 15 minutes + light | Yes | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) [[2](#publications), [3](#publications)] | NA | [0000-0003-4379-8967](https://orcid.org/0000-0003-4379-8967) | | |


# Publications

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