Software:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Flow Cytometry:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
In Vivo:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
FACS:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Enzyme-linked Immunosorbent Assay:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Confocal Microscopy:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Microscopy:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Molecular Cloning:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Immunohistochemistry:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Sequencing:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
Gene Expression:Article Title: Engineered CD47 protects T cells for enhanced antitumour immunity
Article Snippet: Software and code Policy information about availability of computer code Data collection FACSDiva ver 8.0.1 (BD Biosciences): Flow cytometry data acquisition BD Accuri C6 software ver 1.0.264.21 (BD Biosciences): Flow cytometry data acquisition IncuCyte S3 ver 2019B Rev2 Software (Sartorius): Cytotoxicity data acquisition LivingImage ver 4.7.3 (Perkin Elmer): In Vivo Bioluminescence data acquisition Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data acquisition SH800S cell sorter software ver 2.1.5 (SONY): Cell sorting data acquisition Gen5 ver 2.00.18 (BioTek): ELISA quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy cellSens ver 3.2 (Olympus Life Science): histology microscopy 2 nature portfolio | reporting sum m ary M arch 2021 Data analysis FlowJo ver 10.8.1 (BD): Flow cytometry data analysis Excel ver 16.64 (Microsoft): Analysis of bulk data Prism ver 9.5.1 (GraphPad): Generation of graphs and statistical analysis SnapGene ver 6.0.2 (Dotmatics): DNA vector design and molecular cloning Aura ver 4.0.7 (Spectral Instruments Imaging): In Vivo Bioluminescence data quantification Imaris ver 10.0 (Oxford Instruments): confocal microscopy PyMol ver 2.5.8 (Schrödinger, LLC): protein structure modeling Aperio ImageScope ver 12.3.2.8013: IHC positivity score analysis CellRanger ver 6.0: demultiplexing and alignment of sequencing reads to host reference genomes Seurat ver 4.2.0: cell type identification, differential gene expression analyses, and visualizations R ver 4.2.2: statistical and scRNA-seq data analysis For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers.
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