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gse175540 spatial transcriptome sequencing data npc  (ATCC)


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    ATCC gse175540 spatial transcriptome sequencing data npc
    Gse175540 Spatial Transcriptome Sequencing Data Npc, supplied by ATCC, used in various techniques. Bioz Stars score: 91/100, based on 6 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/spatial+transcriptome+sequencing+data/Phytophthora+palmivora+(Butler)+Butler/pmc12281385__mmc5-281-58-73
    Average 91 stars, based on 6 article reviews
    gse175540 spatial transcriptome sequencing data npc - by Bioz Stars, 2026-10
    91/100 stars

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    Single Cell:

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 Article ll OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    Sequencing:

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 Article ll OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    RNA Sequencing:

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 Article ll OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    Software:

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.

    Article Title: Interferon-responsive HEVs drive tumor tertiary lymphoid structure formation and predict immunotherapy response in nasopharyngeal carcinoma
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Foxp3/Transcription Factor Staining Buffer Set ThermoFisher Cat# 00-5523-00 Recombinant human CXCL9 MedChemExpress Cat# HY-P7253 Recombinant human IFNγ PeproTech Cat# 300-02-100 Recombinant human IFNβ MedChemExpress Cat# HY-P73128 Recombinant human TNFα PeproTech Cat# 300-01A-50 Recombinant human LIGHT PeproTech Cat# CM84 Deposited data GeoMx Digital spatial profiler data (TLS) This paper GEO: GSE289272 RNA-seq data of isolated endothelial cell subsets This paper NGDC: HRA010207 RNA-seq data of HUVEC after cytokines induction This paper NGDC: HRA010207 Pan-cancer vascular EC profile https://www.nature.com/ articles/s41586-024-07698-1 NGDC: PRJCA018695 Bulk RNA-seq data (Melanoma-GSE100797, Melanoma-GSE91061, Melanoma-PRJEB23709, Metastatic gastric cancer-PRJEB25780, NSCLC-GSE135222, Renal cell carcinoma-Braun.2020) https://doi.org/10.1016/j.gpb. .. 2022.08.004 TIGER: http://tiger.canceromics.org/ Single-cell transcriptome sequencing and bulk RNA sequencing data (NPC-HRA000087) https://www.nature.com/articles/ s41422-020-00402-8 NGDC: HRA000087 Bulk RNA sequencing data (NPC-HRA004738) https://www.nature.com/articles/ s41467-023-40402-x NGDC: HRA004738 Single-cell transcriptome sequencing data (CRC) https://www.cell.com/cancer-cell/ fulltext/S1535-6108(23)00137-X?_ returnURL=https%3A%2F%2 Flinkinghub.elsevier.com%2 Fretrieve%2Fpii%2FS1535 61082300137X%3Fshowall%3Dtrue GEO: GSE205506 Single-cell transcriptome sequencing data (ccRCC) https://www.nature.com/articles/ s41467-022-33375-w GEO: GSE178481 Spatial transcriptome sequencing data (ccRCC) https://www.cell.com/immunity/fulltext/ S1074-7613(22)00081-4?_returnURL= https%3A%2F%2Flinkinghub.elsevier. com%2Fretrieve%2Fpii%2FS107476 1322000814%3Fshowall%3Dtrue GEO: GSE175540 Spatial transcriptome sequencing data (NPC) https://www.nature.com/articles/ s41467-024-52153-4 GEO: GSE206245 Experimental models: Cell lines HUVEC ATCC Cat# CRL-1730; RRID: CVCL_2959 Oligonucleotides Primers in Table S1 This paper N/A Software and algorithms FlowJo V.10 BD Bioscience https://www.flowjo.com/ GraphPad Prism (9.3.1) Dotmatics https://www.graphpad.com/ R (v4.4.1) R Core Team https://www.r-project.org Python (3.9.12) Python http://www.python.org/ HALO (3.2.1851) Indica Labs https://indicalab.com/ ggplot2 (3.4.4) CRAN https://CRAN.R-project.org/package=ggplot2 (Continued on next page) Cell Reports Medicine 6, 102200, July 15, 2025 e2 Article ll OPEN ACCESS .. HUVEC cell lines were purchased from the American Type Culture Collection (Manassas, VA, USA) and were used within 6 months of thawing.



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    Spatial Transcriptomics Inc spatial transcriptomics sequencing data
    Investigations on SGMS2—related Cellular and Molecular Interactions in Hepatocellular Carcinoma. a Western blotting analysis of SGMS2 expression in THP—1 cells and differentiated macrophages. Each experiment was independently repeated three times. b , c Apoptosis levels of Huh7 tumor cells co—cultured with control macrophages and SGMS2—overexpressing macrophages were detected by flow cytometry (FCM). d Expression of SGMS2 in spatial <t>transcriptomics</t> <t>sequencing</t> data. e Abundance estimation of the CD56dimCD16highNR4A3high NK cell population by single—sample gene—set enrichment analysis (ssGSEA). f Multiplex immunofluorescence (mIF) images of SGMS2, CD68, CD16, CD56, and NR4A3 markers in 6 human HCC tissue samples. “Zoom macrophage” indicates the aggregation area of SGMS2—positive macrophages, and “Zoom NK cell” represents the CD56dimCD16highNR4A3high NK cells. The scale bar is 50 um or 20 um. g Scatter plots showing the density of CD56dimCD16highNR4A3high NK cells between patients with high and low infiltration of SGMS2—positive macrophages. Statistical analysis was performed using the Mann—Whitney U test. h Pearson correlation analysis of the density of CD56dimCD16highNR4A3high NK cells and the density of SGMS2—positive macrophages. i Kaplan—Meier analysis of OS, RFS, and early RFS in HCC patients with different infiltration densities of SGMS2—positive macrophages and CD56dimCD16highNR4A3high NK cells. Survival distributions were compared using the log—rank test. Statistical significance is indicated as follows: * P < 0.05, ** P < 0.01, *** P < 0.001; ns indicates no significant difference
    Spatial Transcriptomics Sequencing Data, supplied by Spatial Transcriptomics Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    spatial transcriptomic sequencing data  (10X Genomics)
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    10X Genomics spatial transcriptomic sequencing data
    Investigations on SGMS2—related Cellular and Molecular Interactions in Hepatocellular Carcinoma. a Western blotting analysis of SGMS2 expression in THP—1 cells and differentiated macrophages. Each experiment was independently repeated three times. b , c Apoptosis levels of Huh7 tumor cells co—cultured with control macrophages and SGMS2—overexpressing macrophages were detected by flow cytometry (FCM). d Expression of SGMS2 in spatial <t>transcriptomics</t> <t>sequencing</t> data. e Abundance estimation of the CD56dimCD16highNR4A3high NK cell population by single—sample gene—set enrichment analysis (ssGSEA). f Multiplex immunofluorescence (mIF) images of SGMS2, CD68, CD16, CD56, and NR4A3 markers in 6 human HCC tissue samples. “Zoom macrophage” indicates the aggregation area of SGMS2—positive macrophages, and “Zoom NK cell” represents the CD56dimCD16highNR4A3high NK cells. The scale bar is 50 um or 20 um. g Scatter plots showing the density of CD56dimCD16highNR4A3high NK cells between patients with high and low infiltration of SGMS2—positive macrophages. Statistical analysis was performed using the Mann—Whitney U test. h Pearson correlation analysis of the density of CD56dimCD16highNR4A3high NK cells and the density of SGMS2—positive macrophages. i Kaplan—Meier analysis of OS, RFS, and early RFS in HCC patients with different infiltration densities of SGMS2—positive macrophages and CD56dimCD16highNR4A3high NK cells. Survival distributions were compared using the log—rank test. Statistical significance is indicated as follows: * P < 0.05, ** P < 0.01, *** P < 0.001; ns indicates no significant difference
    Spatial Transcriptomic Sequencing Data, supplied by 10X Genomics, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/spatial+transcriptome+sequencing+data/data+spatial+transcriptomic/pm41044625-67-0-11
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    spatial transcriptome sequencing data analysis  (LC Bio Co Ltd)
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    LC Bio Co Ltd spatial transcriptome sequencing data analysis
    Investigations on SGMS2—related Cellular and Molecular Interactions in Hepatocellular Carcinoma. a Western blotting analysis of SGMS2 expression in THP—1 cells and differentiated macrophages. Each experiment was independently repeated three times. b , c Apoptosis levels of Huh7 tumor cells co—cultured with control macrophages and SGMS2—overexpressing macrophages were detected by flow cytometry (FCM). d Expression of SGMS2 in spatial <t>transcriptomics</t> <t>sequencing</t> data. e Abundance estimation of the CD56dimCD16highNR4A3high NK cell population by single—sample gene—set enrichment analysis (ssGSEA). f Multiplex immunofluorescence (mIF) images of SGMS2, CD68, CD16, CD56, and NR4A3 markers in 6 human HCC tissue samples. “Zoom macrophage” indicates the aggregation area of SGMS2—positive macrophages, and “Zoom NK cell” represents the CD56dimCD16highNR4A3high NK cells. The scale bar is 50 um or 20 um. g Scatter plots showing the density of CD56dimCD16highNR4A3high NK cells between patients with high and low infiltration of SGMS2—positive macrophages. Statistical analysis was performed using the Mann—Whitney U test. h Pearson correlation analysis of the density of CD56dimCD16highNR4A3high NK cells and the density of SGMS2—positive macrophages. i Kaplan—Meier analysis of OS, RFS, and early RFS in HCC patients with different infiltration densities of SGMS2—positive macrophages and CD56dimCD16highNR4A3high NK cells. Survival distributions were compared using the log—rank test. Statistical significance is indicated as follows: * P < 0.05, ** P < 0.01, *** P < 0.001; ns indicates no significant difference
    Spatial Transcriptome Sequencing Data Analysis, supplied by LC Bio Co Ltd, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Average 90 stars, based on 1 article reviews
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    spatial transcriptome sequencing data  (10X Genomics)
    90
    10X Genomics spatial transcriptome sequencing data
    Investigations on SGMS2—related Cellular and Molecular Interactions in Hepatocellular Carcinoma. a Western blotting analysis of SGMS2 expression in THP—1 cells and differentiated macrophages. Each experiment was independently repeated three times. b , c Apoptosis levels of Huh7 tumor cells co—cultured with control macrophages and SGMS2—overexpressing macrophages were detected by flow cytometry (FCM). d Expression of SGMS2 in spatial <t>transcriptomics</t> <t>sequencing</t> data. e Abundance estimation of the CD56dimCD16highNR4A3high NK cell population by single—sample gene—set enrichment analysis (ssGSEA). f Multiplex immunofluorescence (mIF) images of SGMS2, CD68, CD16, CD56, and NR4A3 markers in 6 human HCC tissue samples. “Zoom macrophage” indicates the aggregation area of SGMS2—positive macrophages, and “Zoom NK cell” represents the CD56dimCD16highNR4A3high NK cells. The scale bar is 50 um or 20 um. g Scatter plots showing the density of CD56dimCD16highNR4A3high NK cells between patients with high and low infiltration of SGMS2—positive macrophages. Statistical analysis was performed using the Mann—Whitney U test. h Pearson correlation analysis of the density of CD56dimCD16highNR4A3high NK cells and the density of SGMS2—positive macrophages. i Kaplan—Meier analysis of OS, RFS, and early RFS in HCC patients with different infiltration densities of SGMS2—positive macrophages and CD56dimCD16highNR4A3high NK cells. Survival distributions were compared using the log—rank test. Statistical significance is indicated as follows: * P < 0.05, ** P < 0.01, *** P < 0.001; ns indicates no significant difference
    Spatial Transcriptome Sequencing Data, supplied by 10X Genomics, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/spatial+transcriptome+sequencing+data/spatial+transcriptomic+data/pm40532600-90-2-9
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    Investigations on SGMS2—related Cellular and Molecular Interactions in Hepatocellular Carcinoma. a Western blotting analysis of SGMS2 expression in THP—1 cells and differentiated macrophages. Each experiment was independently repeated three times. b , c Apoptosis levels of Huh7 tumor cells co—cultured with control macrophages and SGMS2—overexpressing macrophages were detected by flow cytometry (FCM). d Expression of SGMS2 in spatial transcriptomics sequencing data. e Abundance estimation of the CD56dimCD16highNR4A3high NK cell population by single—sample gene—set enrichment analysis (ssGSEA). f Multiplex immunofluorescence (mIF) images of SGMS2, CD68, CD16, CD56, and NR4A3 markers in 6 human HCC tissue samples. “Zoom macrophage” indicates the aggregation area of SGMS2—positive macrophages, and “Zoom NK cell” represents the CD56dimCD16highNR4A3high NK cells. The scale bar is 50 um or 20 um. g Scatter plots showing the density of CD56dimCD16highNR4A3high NK cells between patients with high and low infiltration of SGMS2—positive macrophages. Statistical analysis was performed using the Mann—Whitney U test. h Pearson correlation analysis of the density of CD56dimCD16highNR4A3high NK cells and the density of SGMS2—positive macrophages. i Kaplan—Meier analysis of OS, RFS, and early RFS in HCC patients with different infiltration densities of SGMS2—positive macrophages and CD56dimCD16highNR4A3high NK cells. Survival distributions were compared using the log—rank test. Statistical significance is indicated as follows: * P < 0.05, ** P < 0.01, *** P < 0.001; ns indicates no significant difference

    Journal: Journal of Translational Medicine

    Article Title: SGMS2+ macrophages enhance NR4A3hi NK cell infiltration to improve prognosis and PD-1 treatment efficacy in hepatocellular carcinoma

    doi: 10.1186/s12967-025-07040-x

    Figure Lengend Snippet: Investigations on SGMS2—related Cellular and Molecular Interactions in Hepatocellular Carcinoma. a Western blotting analysis of SGMS2 expression in THP—1 cells and differentiated macrophages. Each experiment was independently repeated three times. b , c Apoptosis levels of Huh7 tumor cells co—cultured with control macrophages and SGMS2—overexpressing macrophages were detected by flow cytometry (FCM). d Expression of SGMS2 in spatial transcriptomics sequencing data. e Abundance estimation of the CD56dimCD16highNR4A3high NK cell population by single—sample gene—set enrichment analysis (ssGSEA). f Multiplex immunofluorescence (mIF) images of SGMS2, CD68, CD16, CD56, and NR4A3 markers in 6 human HCC tissue samples. “Zoom macrophage” indicates the aggregation area of SGMS2—positive macrophages, and “Zoom NK cell” represents the CD56dimCD16highNR4A3high NK cells. The scale bar is 50 um or 20 um. g Scatter plots showing the density of CD56dimCD16highNR4A3high NK cells between patients with high and low infiltration of SGMS2—positive macrophages. Statistical analysis was performed using the Mann—Whitney U test. h Pearson correlation analysis of the density of CD56dimCD16highNR4A3high NK cells and the density of SGMS2—positive macrophages. i Kaplan—Meier analysis of OS, RFS, and early RFS in HCC patients with different infiltration densities of SGMS2—positive macrophages and CD56dimCD16highNR4A3high NK cells. Survival distributions were compared using the log—rank test. Statistical significance is indicated as follows: * P < 0.05, ** P < 0.01, *** P < 0.001; ns indicates no significant difference

    Article Snippet: Spatial transcriptomics sequencing data were obtained from http://lifeome.net/supp/livercancer-st/data.htm and analyzed using Seurat in R. Subsequently, SCTtransform normalization was performed.

    Techniques: Western Blot, Expressing, Cell Culture, Control, Flow Cytometry, Sequencing, Multiplex Assay, Immunofluorescence, MANN-WHITNEY