other:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 Article ll OPEN ACCESS
Staining:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Human IL-6 Enhanced Sensitivity Flex Set BD Biosciences 561512 CellTrace CFSE Cell Proliferation Kit Thermo Fisher Scientific C34554 LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit Thermo Fisher Scientific L34976 Cyto-Fast Fix/Perm Buffer Set BioLegend 426803 PE-Cy7 Annexin V BioLegend 640951 Maxpar X8 Antibody labeling kit, 151Eu- 4Rxn Standard BioTools 201151A Maxpar X8 Antibody Labeling Kit, 155Gd—4 Rxn Standard BioTools 201155A Maxpar X8 Antibody Labeling Kit, 158Gd—4 Rxn Standard BioTools 201158A Deposited data RNA-seq of CAR-T cells (Figure 2) This paper GSE216734 Mass cytometry analysis of CAR-T cells This paper FlowRepository (http://flowrepository.org): FR-FCM-Z77Y RNA-seq of CAR-T cells (Figure S3) This paper GSE255145 Experimental models: Cell lines K562 Japanese Collection of Research Bioresources (JCRB) JCRB0019 Raji Japanese Collection of Research Bioresources (JCRB) JCRB9012 NALM-6 Cell Resource Center for Biomedical Research TKG 0413 PG13 American Type Culture Collection (ATCC) CRL-3597 AsPC-1 American Type Culture Collection (ATCC) CRL-1682 Jurkat, clone E6-1 American Type Culture Collection (ATCC) TIB-152 Plat-A Toshio Kitamura N/A Plat-E Toshio Kitamura N/A Lenti-X 293T Takara Bio Cat#632180 K562-OKT3/CD80 Yoshikawa et al.59 N/A K562-CD19 Yoshikawa et al.59 N/A K562-mesothelin Yoshikawa et al.59 N/A NALM6-GL Yoshikawa et al.59 N/A NALM6-GD2 Yoshikawa et al.59 N/A Experimental models: Organisms/strains NOD-SCID IL2rgnull (NSG) Jackson Laboratory Strain #:005557 NOG-Iab KO (NOG-DMHC) In-Vivo Science N/A NOG-hGM-CSF/hIL-3 Tg (NOG-EXL) In-Vivo Science N/A Recombinant DNA pMX Toshio Kitamura N/A Anti-CD19 scFv (clone FMC63) Nicholson et al.60 N/A Anti-mesothelin scFv (clone ss1) Li et al.61 N/A Anti-GD2 scFv (clone 14g2a) with E101K mutation Rossig et al.62 Horwacik et al.63 N/A (Continued on next page) Cell Reports Medicine 5, 101526, May 21, 2024 e3 OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 OPEN ACCESS
Antibody Labeling:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Human IL-6 Enhanced Sensitivity Flex Set BD Biosciences 561512 CellTrace CFSE Cell Proliferation Kit Thermo Fisher Scientific C34554 LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit Thermo Fisher Scientific L34976 Cyto-Fast Fix/Perm Buffer Set BioLegend 426803 PE-Cy7 Annexin V BioLegend 640951 Maxpar X8 Antibody labeling kit, 151Eu- 4Rxn Standard BioTools 201151A Maxpar X8 Antibody Labeling Kit, 155Gd—4 Rxn Standard BioTools 201155A Maxpar X8 Antibody Labeling Kit, 158Gd—4 Rxn Standard BioTools 201158A Deposited data RNA-seq of CAR-T cells (Figure 2) This paper GSE216734 Mass cytometry analysis of CAR-T cells This paper FlowRepository (http://flowrepository.org): FR-FCM-Z77Y RNA-seq of CAR-T cells (Figure S3) This paper GSE255145 Experimental models: Cell lines K562 Japanese Collection of Research Bioresources (JCRB) JCRB0019 Raji Japanese Collection of Research Bioresources (JCRB) JCRB9012 NALM-6 Cell Resource Center for Biomedical Research TKG 0413 PG13 American Type Culture Collection (ATCC) CRL-3597 AsPC-1 American Type Culture Collection (ATCC) CRL-1682 Jurkat, clone E6-1 American Type Culture Collection (ATCC) TIB-152 Plat-A Toshio Kitamura N/A Plat-E Toshio Kitamura N/A Lenti-X 293T Takara Bio Cat#632180 K562-OKT3/CD80 Yoshikawa et al.59 N/A K562-CD19 Yoshikawa et al.59 N/A K562-mesothelin Yoshikawa et al.59 N/A NALM6-GL Yoshikawa et al.59 N/A NALM6-GD2 Yoshikawa et al.59 N/A Experimental models: Organisms/strains NOD-SCID IL2rgnull (NSG) Jackson Laboratory Strain #:005557 NOG-Iab KO (NOG-DMHC) In-Vivo Science N/A NOG-hGM-CSF/hIL-3 Tg (NOG-EXL) In-Vivo Science N/A Recombinant DNA pMX Toshio Kitamura N/A Anti-CD19 scFv (clone FMC63) Nicholson et al.60 N/A Anti-mesothelin scFv (clone ss1) Li et al.61 N/A Anti-GD2 scFv (clone 14g2a) with E101K mutation Rossig et al.62 Horwacik et al.63 N/A (Continued on next page) Cell Reports Medicine 5, 101526, May 21, 2024 e3 OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 OPEN ACCESS
RNA Sequencing:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Human IL-6 Enhanced Sensitivity Flex Set BD Biosciences 561512 CellTrace CFSE Cell Proliferation Kit Thermo Fisher Scientific C34554 LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit Thermo Fisher Scientific L34976 Cyto-Fast Fix/Perm Buffer Set BioLegend 426803 PE-Cy7 Annexin V BioLegend 640951 Maxpar X8 Antibody labeling kit, 151Eu- 4Rxn Standard BioTools 201151A Maxpar X8 Antibody Labeling Kit, 155Gd—4 Rxn Standard BioTools 201155A Maxpar X8 Antibody Labeling Kit, 158Gd—4 Rxn Standard BioTools 201158A Deposited data RNA-seq of CAR-T cells (Figure 2) This paper GSE216734 Mass cytometry analysis of CAR-T cells This paper FlowRepository (http://flowrepository.org): FR-FCM-Z77Y RNA-seq of CAR-T cells (Figure S3) This paper GSE255145 Experimental models: Cell lines K562 Japanese Collection of Research Bioresources (JCRB) JCRB0019 Raji Japanese Collection of Research Bioresources (JCRB) JCRB9012 NALM-6 Cell Resource Center for Biomedical Research TKG 0413 PG13 American Type Culture Collection (ATCC) CRL-3597 AsPC-1 American Type Culture Collection (ATCC) CRL-1682 Jurkat, clone E6-1 American Type Culture Collection (ATCC) TIB-152 Plat-A Toshio Kitamura N/A Plat-E Toshio Kitamura N/A Lenti-X 293T Takara Bio Cat#632180 K562-OKT3/CD80 Yoshikawa et al.59 N/A K562-CD19 Yoshikawa et al.59 N/A K562-mesothelin Yoshikawa et al.59 N/A NALM6-GL Yoshikawa et al.59 N/A NALM6-GD2 Yoshikawa et al.59 N/A Experimental models: Organisms/strains NOD-SCID IL2rgnull (NSG) Jackson Laboratory Strain #:005557 NOG-Iab KO (NOG-DMHC) In-Vivo Science N/A NOG-hGM-CSF/hIL-3 Tg (NOG-EXL) In-Vivo Science N/A Recombinant DNA pMX Toshio Kitamura N/A Anti-CD19 scFv (clone FMC63) Nicholson et al.60 N/A Anti-mesothelin scFv (clone ss1) Li et al.61 N/A Anti-GD2 scFv (clone 14g2a) with E101K mutation Rossig et al.62 Horwacik et al.63 N/A (Continued on next page) Cell Reports Medicine 5, 101526, May 21, 2024 e3 OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 OPEN ACCESS
Mass Cytometry:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Human IL-6 Enhanced Sensitivity Flex Set BD Biosciences 561512 CellTrace CFSE Cell Proliferation Kit Thermo Fisher Scientific C34554 LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit Thermo Fisher Scientific L34976 Cyto-Fast Fix/Perm Buffer Set BioLegend 426803 PE-Cy7 Annexin V BioLegend 640951 Maxpar X8 Antibody labeling kit, 151Eu- 4Rxn Standard BioTools 201151A Maxpar X8 Antibody Labeling Kit, 155Gd—4 Rxn Standard BioTools 201155A Maxpar X8 Antibody Labeling Kit, 158Gd—4 Rxn Standard BioTools 201158A Deposited data RNA-seq of CAR-T cells (Figure 2) This paper GSE216734 Mass cytometry analysis of CAR-T cells This paper FlowRepository (http://flowrepository.org): FR-FCM-Z77Y RNA-seq of CAR-T cells (Figure S3) This paper GSE255145 Experimental models: Cell lines K562 Japanese Collection of Research Bioresources (JCRB) JCRB0019 Raji Japanese Collection of Research Bioresources (JCRB) JCRB9012 NALM-6 Cell Resource Center for Biomedical Research TKG 0413 PG13 American Type Culture Collection (ATCC) CRL-3597 AsPC-1 American Type Culture Collection (ATCC) CRL-1682 Jurkat, clone E6-1 American Type Culture Collection (ATCC) TIB-152 Plat-A Toshio Kitamura N/A Plat-E Toshio Kitamura N/A Lenti-X 293T Takara Bio Cat#632180 K562-OKT3/CD80 Yoshikawa et al.59 N/A K562-CD19 Yoshikawa et al.59 N/A K562-mesothelin Yoshikawa et al.59 N/A NALM6-GL Yoshikawa et al.59 N/A NALM6-GD2 Yoshikawa et al.59 N/A Experimental models: Organisms/strains NOD-SCID IL2rgnull (NSG) Jackson Laboratory Strain #:005557 NOG-Iab KO (NOG-DMHC) In-Vivo Science N/A NOG-hGM-CSF/hIL-3 Tg (NOG-EXL) In-Vivo Science N/A Recombinant DNA pMX Toshio Kitamura N/A Anti-CD19 scFv (clone FMC63) Nicholson et al.60 N/A Anti-mesothelin scFv (clone ss1) Li et al.61 N/A Anti-GD2 scFv (clone 14g2a) with E101K mutation Rossig et al.62 Horwacik et al.63 N/A (Continued on next page) Cell Reports Medicine 5, 101526, May 21, 2024 e3 OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 OPEN ACCESS
Recombinant:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Human IL-6 Enhanced Sensitivity Flex Set BD Biosciences 561512 CellTrace CFSE Cell Proliferation Kit Thermo Fisher Scientific C34554 LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit Thermo Fisher Scientific L34976 Cyto-Fast Fix/Perm Buffer Set BioLegend 426803 PE-Cy7 Annexin V BioLegend 640951 Maxpar X8 Antibody labeling kit, 151Eu- 4Rxn Standard BioTools 201151A Maxpar X8 Antibody Labeling Kit, 155Gd—4 Rxn Standard BioTools 201155A Maxpar X8 Antibody Labeling Kit, 158Gd—4 Rxn Standard BioTools 201158A Deposited data RNA-seq of CAR-T cells (Figure 2) This paper GSE216734 Mass cytometry analysis of CAR-T cells This paper FlowRepository (http://flowrepository.org): FR-FCM-Z77Y RNA-seq of CAR-T cells (Figure S3) This paper GSE255145 Experimental models: Cell lines K562 Japanese Collection of Research Bioresources (JCRB) JCRB0019 Raji Japanese Collection of Research Bioresources (JCRB) JCRB9012 NALM-6 Cell Resource Center for Biomedical Research TKG 0413 PG13 American Type Culture Collection (ATCC) CRL-3597 AsPC-1 American Type Culture Collection (ATCC) CRL-1682 Jurkat, clone E6-1 American Type Culture Collection (ATCC) TIB-152 Plat-A Toshio Kitamura N/A Plat-E Toshio Kitamura N/A Lenti-X 293T Takara Bio Cat#632180 K562-OKT3/CD80 Yoshikawa et al.59 N/A K562-CD19 Yoshikawa et al.59 N/A K562-mesothelin Yoshikawa et al.59 N/A NALM6-GL Yoshikawa et al.59 N/A NALM6-GD2 Yoshikawa et al.59 N/A Experimental models: Organisms/strains NOD-SCID IL2rgnull (NSG) Jackson Laboratory Strain #:005557 NOG-Iab KO (NOG-DMHC) In-Vivo Science N/A NOG-hGM-CSF/hIL-3 Tg (NOG-EXL) In-Vivo Science N/A Recombinant DNA pMX Toshio Kitamura N/A Anti-CD19 scFv (clone FMC63) Nicholson et al.60 N/A Anti-mesothelin scFv (clone ss1) Li et al.61 N/A Anti-GD2 scFv (clone 14g2a) with E101K mutation Rossig et al.62 Horwacik et al.63 N/A (Continued on next page) Cell Reports Medicine 5, 101526, May 21, 2024 e3 OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 OPEN ACCESS
Mutagenesis:Article Title: Development of a chimeric cytokine receptor that captures IL-6 and enhances the antitumor response of CAR-T cells.
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Human IL-6 Enhanced Sensitivity Flex Set BD Biosciences 561512 CellTrace CFSE Cell Proliferation Kit Thermo Fisher Scientific C34554 LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit Thermo Fisher Scientific L34976 Cyto-Fast Fix/Perm Buffer Set BioLegend 426803 PE-Cy7 Annexin V BioLegend 640951 Maxpar X8 Antibody labeling kit, 151Eu- 4Rxn Standard BioTools 201151A Maxpar X8 Antibody Labeling Kit, 155Gd—4 Rxn Standard BioTools 201155A Maxpar X8 Antibody Labeling Kit, 158Gd—4 Rxn Standard BioTools 201158A Deposited data RNA-seq of CAR-T cells (Figure 2) This paper GSE216734 Mass cytometry analysis of CAR-T cells This paper FlowRepository (http://flowrepository.org): FR-FCM-Z77Y RNA-seq of CAR-T cells (Figure S3) This paper GSE255145 Experimental models: Cell lines K562 Japanese Collection of Research Bioresources (JCRB) JCRB0019 Raji Japanese Collection of Research Bioresources (JCRB) JCRB9012 NALM-6 Cell Resource Center for Biomedical Research TKG 0413 PG13 American Type Culture Collection (ATCC) CRL-3597 AsPC-1 American Type Culture Collection (ATCC) CRL-1682 Jurkat, clone E6-1 American Type Culture Collection (ATCC) TIB-152 Plat-A Toshio Kitamura N/A Plat-E Toshio Kitamura N/A Lenti-X 293T Takara Bio Cat#632180 K562-OKT3/CD80 Yoshikawa et al.59 N/A K562-CD19 Yoshikawa et al.59 N/A K562-mesothelin Yoshikawa et al.59 N/A NALM6-GL Yoshikawa et al.59 N/A NALM6-GD2 Yoshikawa et al.59 N/A Experimental models: Organisms/strains NOD-SCID IL2rgnull (NSG) Jackson Laboratory Strain #:005557 NOG-Iab KO (NOG-DMHC) In-Vivo Science N/A NOG-hGM-CSF/hIL-3 Tg (NOG-EXL) In-Vivo Science N/A Recombinant DNA pMX Toshio Kitamura N/A Anti-CD19 scFv (clone FMC63) Nicholson et al.60 N/A Anti-mesothelin scFv (clone ss1) Li et al.61 N/A Anti-GD2 scFv (clone 14g2a) with E101K mutation Rossig et al.62 Horwacik et al.63 N/A (Continued on next page) Cell Reports Medicine 5, 101526, May 21, 2024 e3 OPEN ACCESS .. REAGENT or RESOURCE SOURCE IDENTIFIER 28z CAR Yoshikawa et al.59 N/A BBz CAR Yoshikawa et al.59 N/A pLVpro-MND Takara Bio N/A LVpro Packaging Mix Takara Bio 6195 6/7R Table S1 N/A G6/7R Table S1 N/A G6/7R-M452L Table S1 N/A IL1R2 This manuscript N/A CD34/7R This manuscript; originally designed by Shum et al.9 N/A CD34/7R-M452L Table S1 N/A EGFP-P2A-luciferase Yoshikawa et al.59 N/A Software and algorithms Living Image v4.7.4 PerkinElmer https://www.perkinelmer.com/lab-products- and-services/resources/in-vivo-imagingsoftware-downloads.html Flowjov10.9.0 BD Biosciences https://www.flowjo.com/ GraphPad Prism v10.0.0 GraphPad software https://www.graphpad.com/ Kuant v2.0 Vilber Bio Imaging https://www.vilber.com/ GSEA v4.0.3 Broad Institute https://www.gsea-msigdb.org/gsea/index.jsp R v4.0.5 R project https://www.r-project.org/ fastp v0.23.2 Chen et al.64 https://github.com/OpenGene/fastp Hisat2 v2.1.0 Kim et al.65 https://daehwankimlab.github.io/hisat2/ HTseq v0.11.2 Anders et al.66 https://github.com/htseq/htseq edgeR v3.28.1 Robinson et al.67 https://bioconductor.org/packages/ release/bioc/html/edgeR.html Subread Liao et al.68 https://subread.sourceforge.net/ EmbedSOM Kratochvı́l et al.38 https://www.flowjo.com/exchange/ #/plugin/profile?id=19 flowSOM Van Gassen et al.69 https://www.flowjo.com/exchange/ #/plugin/profile?id=7 OPEN ACCESS
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