Recombinant:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
Enzyme-linked Immunosorbent Assay:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
Sequencing:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
Sample Prep:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
RNA HS Assay:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
RNA Sequencing:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
Gene Expression:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
Software:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
Indirect Immunoperoxidase Assay:Article Title: Single-Cell Transcriptome Analysis Dissects the Replicating Process of Pancreatic Beta Cells in Partial Pancreatectomy Model
Article Snippet: .. REAGENT or RESOURCE SOURCE IDENTIFIER Antibodies Rabbit anti-insulin Abcam Cat#ab181547 Rat anti-BrdU Abcam Cat#ab6326 Chemicals, Peptides, and Recombinant Proteins 5-Bromo-2′-deoxyuridine (BrdU) Sigma-Aldrich Cat# B5002-5G Trypsin-EDTA Thermo Fisher Scientific Cat#15400-054 RPMI 1640 medium Thermo Fisher Scientific Cat#31800-022 Critical Commercial Assays UltraSensitive PLUS Mouse Insulin ELISA Morinaga Cat#49170-53 SMARTer Ultra Low Input RNA Kit for Sequencing - v3 Takara Bio Inc. Cat#634851 Nextera XT DNA Sample Preparation kits Illumina Cat#FC-131-1096 SureCell WTA 3′ Library Prep Kit for the ddSEQ System Illumina Cat20014279 Qubit RNA HS Assay Kit Thermo Fisher Scientific Cat#Q32855 Agilent RNA 6000 Pico Kit Agilent Technologies, Inc. Cat#5067-1513 High Sensitivity D5000 ScreenTape Agilent Technologies, Inc. Cat#5067-5592 Deposited Data Raw data files for RNA sequencing NCBI Gene Expression GSE152730 GSE152731 Experimental Models: Organisms/Strains Mouse: C57BL/6 Japan SLC, Inc. Software and Algorithms R−3.5 R project https://www.r- project.org Seurat-3.1 Satija lab https://satijalab.org/s eurat Monocle-2.4 Trapnell lab http://cole-trapnell- lab.github.io/monocl e-release/ HISAT2-2.0 Pertea et al. 2016. https://ccb.jhu.edu/s oftware/hisat2/manu al.shtml HTSeq-0.8 Anders, Pyl, and Huber 2015. https://htseq.readthe docs.io/en/master/ biocManager-1.30 Bioconductor project https://bioconductor. org DESeq2-1.22 Love, Huber, and Anders 2014. https://bioconductor. org/packages/releas e/bioc/html/DESeq2. html GOseq-1.34 Young et al. 2010. https://bioconductor. org/packages/releas e/bioc/html/goseq.ht ml Cell Ranger-2.1 10x Genomics Ingenuity Pathway Aanalysis (IPA) QIAGEN https://digitalinsights. qiagen.com/products -overview/discovery- insights- portfolio/analysis- and- visualization/qiagen- ipa/ HOMER-4.1 Benner Lab http://homer.ucsd.ed u/homer/motif/ iReguron-1.3 Stein Aerts Lab http://iregulon.aertsla b.org GraphPad PRISM 8 GraphPad Software https://www.graphpa d.com/scientific- software/prism/ BZ Analyzer KEYENCE .. C57BL/6J male mice were purchased from SLC Japan, Inc. (Hamamatsu, Japan).
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