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2019 enrichplot 1 4 0 software  (Oxford Instruments)


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    Oxford Instruments 2019 enrichplot 1 4 0 software
    2019 Enrichplot 1 4 0 Software, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 44474 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/2019+enrichplot+1+4+0+software/Imaris/10__7554_slash_elife__78662-233-108-113
    Average 99 stars, based on 44474 article reviews
    2019 enrichplot 1 4 0 software - by Bioz Stars, 2026-11
    99/100 stars

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    Software:

    Article Title: CXCR4high megakaryocytes regulate host-defense immunity against bacterial pathogens
    Article Snippet: DOI: https://doi.org/10.7554/eLife.78662 14 of 27 Reagent type (species) or resource Designation Source or reference Identifiers Additional information Antibody Anti- Rabbit AF488 (rabbit polyclonal) Invitrogen Cat#R37118 RRID:AB_2556546 IF (1:1000) Antibody Anti- OVA257- 264 (SIINFEKL) peptide bound to H- 2Kb (mouse monoclonal) Invitrogen Cat#17- 5743- 82 RRID:AB_1311286 FACS (1 μl per test) Antibody Anti- IL- 2 (mouse monoclonal) eBioscience Cat#25- 7021- 80 RRID:AB_1235007 FACS (1 μl per test) Chemical compound, drug Diphtheria toxin (DT) Sigma- Aldrich Cat#D0564- 1MG 40 μg kg–1 body mass Chemical compound, drug BrdU (5- Bromo- 2 ́-Deoxyuridine) Sigma- Aldrich Cat#B5002- 250mg 125 mg kg–1 body mass Chemical compound, drug CFSE (5- Carboxyfluorescein, Succinimidyl Ester) Invitrogen Cat#C2210 2.5 μM Chemical compound, drug GM- CSF Abbkine Cat#PRP2116 10 ng ml–1 Chemical compound, drug IL- 4 novoprotein Cat#CK15 10 ng ml–1 Chemical compound, drug Tamoxifen Sigma- Aldrich Cat#T5648 20 mg ml–1 corn oil Commercial kit Chromium Single Cell 3′ GEM, Library & Gel Bead Kit v3 10 x Genomics PN- 1000075 Commercial kit Chromium Chip B Single Cell Kit 10 x Genomics PN- 1000074 Cell line (Mus musculus) NCTC clone 929 ATCC CCL- 1 RRID:CVCL_0462 Cell line (Mus musculus) B3Z hybridoma CD8 T cell Dr. Nilabh Shastri Other scRNA sequencing data (raw and processed data) This paper GEO: GSE168224 Genetic reagent (Mus musculus) C57BL/6 J Shanghai Model Organisms Genetic reagent (Mus musculus) Tg(Pf4- icre)Q3Rsko/J (Pf4Cre) Jackson Laboratory Stock No: 008535 Genetic reagent (Mus musculus) Gt(ROSA) 26Sortm1(HBEGF) Awai/J (Rosa26fs- iDTR) Jackson Laboratory Stock No: 007900 Genetic reagent (Mus musculus) Gt(ROSA)26Sortm4(ACTBtdTomato,-EGFP)Luo/J (Rosa26fsmTmG) Jackson Laboratory Stock No: 007576 Genetic reagent (Mus musculus) Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J (Rosa26fs- tdTomato) Jackson Laboratory Stock No: 007905 Genetic reagent (Mus musculus) SclCreER mice Göthert et al., 2005 Genetic reagent (Mus musculus) Cxcl12tm2.1Sjm/J (Cxcl12fs- DsRed) Jackson Laboratory Stock No: 022458 Genetic reagent (Mus musculus) C57BL/6- Tg(TcraTcrb)1,100Mjb/J (OT- I) Jackson Laboratory Stock No: 003831 Strain, strain background (L. monocytogenes) 10403 S Bishop and Hinrichs, 1987 Software, algorithm Cell ranger_3.0.2 10 x Genomics tenx RRID:SCR_01695 Software, algorithm R_3.6.3 https://cran.r-project.org/ R 3.6.3 Continued Continued on next page Wang, Xie, Wang et al. eLife 2022;11:e78662. .. DOI: https://doi.org/10.7554/eLife.78662 15 of 27 Reagent type (species) or resource Designation Source or reference Identifiers Additional information Software, algorithm Seurat_3.0.2 Butler et al., 2018 Seurat RRID:SCR_016341 Software, algorithm ggplot2_3.2.0 https://cran.r-project.org/web/ packages/ggplot2/index.html ggplot2 RRID:SCR_014601 Software, algorithm clusterProfiler_3.12.0 Yu et al., 2012 clusterProfiler RRID:SCR_016884 Software, algorithm pheatmap_1.0.12 https://cran.r-project.org/web/ packages/pheatmap/ pheatmap RRID:SCR_016418 Software, algorithm CellPhoneDB_2.1.7 Efremova et al., 2020 CellPhoneDB RRID:SCR_017054 Software, algorithm CellChat_1.1.3 Jin et al., 2021 CellChat 1.1.3 Software, algorithm symphony_1.0 Kang et al., 2021 symphony 1.0 Software, algorithm MetaNeighbor_1.10.0 Crow et al., 2018 MetaNeighbor RRID:SCR_016727 Software, algorithm iMAP_1.0.0 Wang et al., 2021b iMAP 1.0.0 Software, algorithm scmap_ 1.16.0 Kiselev et al., 2018 Scmap RRID:SCR_017338 Software, algorithm enrichplot_1.4.0 Yu, 2019 enrichplot 1.4.0 Software, algorithm Imaris_8.4 Bitplane Imaris RRID:SCR_007370 Software, algorithm FlowJo_10 BD Bioscience FlowJo RRID:SCR_008520 Software, algorithm ImageJ_ 1.8.0 National Institutes of Health ImageJ RRID:SCR_003070 Other DAPI (4',6- Diamidino- 2- Phenylindole, Dihydrochloride) Thermo Fisher Cat#D1306 IF (0.5 μg/mL) Other Corn oil Sigma- Aldrich Cat#PHR2897 Tamoxifen dissolution Other Lymphocyte Separation Medium TBD Science Cat#LTS1077 Liver cell isolation Continued .. C57BL/6- Tg(Pf4- cre)Q3Rsko/J (Pf4Cre), C57BL/6- Gt(ROSA) 26Sortm1(HBEGF) Awai/J (Rosa26fs- iDTR), C57BL/6-Gt(ROSA)26Sortm4(ACTB- tdTomato,-EGFP)Luo/J (Rosa26fs- mTmG), Gt(ROSA)26Sortm9(CAGtdTomato)Hze (Rosa26fs- tdTomato), CXCL12tm2.1Sjm/J (Cxcl12DsRed) and C57BL/6- Tg(TcraTcrb)1,100Mjb/J (OT- I) mice were obtained from the Jackson Laboratory.

    Dissolution:

    Article Title: CXCR4high megakaryocytes regulate host-defense immunity against bacterial pathogens
    Article Snippet: DOI: https://doi.org/10.7554/eLife.78662 14 of 27 Reagent type (species) or resource Designation Source or reference Identifiers Additional information Antibody Anti- Rabbit AF488 (rabbit polyclonal) Invitrogen Cat#R37118 RRID:AB_2556546 IF (1:1000) Antibody Anti- OVA257- 264 (SIINFEKL) peptide bound to H- 2Kb (mouse monoclonal) Invitrogen Cat#17- 5743- 82 RRID:AB_1311286 FACS (1 μl per test) Antibody Anti- IL- 2 (mouse monoclonal) eBioscience Cat#25- 7021- 80 RRID:AB_1235007 FACS (1 μl per test) Chemical compound, drug Diphtheria toxin (DT) Sigma- Aldrich Cat#D0564- 1MG 40 μg kg–1 body mass Chemical compound, drug BrdU (5- Bromo- 2 ́-Deoxyuridine) Sigma- Aldrich Cat#B5002- 250mg 125 mg kg–1 body mass Chemical compound, drug CFSE (5- Carboxyfluorescein, Succinimidyl Ester) Invitrogen Cat#C2210 2.5 μM Chemical compound, drug GM- CSF Abbkine Cat#PRP2116 10 ng ml–1 Chemical compound, drug IL- 4 novoprotein Cat#CK15 10 ng ml–1 Chemical compound, drug Tamoxifen Sigma- Aldrich Cat#T5648 20 mg ml–1 corn oil Commercial kit Chromium Single Cell 3′ GEM, Library & Gel Bead Kit v3 10 x Genomics PN- 1000075 Commercial kit Chromium Chip B Single Cell Kit 10 x Genomics PN- 1000074 Cell line (Mus musculus) NCTC clone 929 ATCC CCL- 1 RRID:CVCL_0462 Cell line (Mus musculus) B3Z hybridoma CD8 T cell Dr. Nilabh Shastri Other scRNA sequencing data (raw and processed data) This paper GEO: GSE168224 Genetic reagent (Mus musculus) C57BL/6 J Shanghai Model Organisms Genetic reagent (Mus musculus) Tg(Pf4- icre)Q3Rsko/J (Pf4Cre) Jackson Laboratory Stock No: 008535 Genetic reagent (Mus musculus) Gt(ROSA) 26Sortm1(HBEGF) Awai/J (Rosa26fs- iDTR) Jackson Laboratory Stock No: 007900 Genetic reagent (Mus musculus) Gt(ROSA)26Sortm4(ACTBtdTomato,-EGFP)Luo/J (Rosa26fsmTmG) Jackson Laboratory Stock No: 007576 Genetic reagent (Mus musculus) Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J (Rosa26fs- tdTomato) Jackson Laboratory Stock No: 007905 Genetic reagent (Mus musculus) SclCreER mice Göthert et al., 2005 Genetic reagent (Mus musculus) Cxcl12tm2.1Sjm/J (Cxcl12fs- DsRed) Jackson Laboratory Stock No: 022458 Genetic reagent (Mus musculus) C57BL/6- Tg(TcraTcrb)1,100Mjb/J (OT- I) Jackson Laboratory Stock No: 003831 Strain, strain background (L. monocytogenes) 10403 S Bishop and Hinrichs, 1987 Software, algorithm Cell ranger_3.0.2 10 x Genomics tenx RRID:SCR_01695 Software, algorithm R_3.6.3 https://cran.r-project.org/ R 3.6.3 Continued Continued on next page Wang, Xie, Wang et al. eLife 2022;11:e78662. .. DOI: https://doi.org/10.7554/eLife.78662 15 of 27 Reagent type (species) or resource Designation Source or reference Identifiers Additional information Software, algorithm Seurat_3.0.2 Butler et al., 2018 Seurat RRID:SCR_016341 Software, algorithm ggplot2_3.2.0 https://cran.r-project.org/web/ packages/ggplot2/index.html ggplot2 RRID:SCR_014601 Software, algorithm clusterProfiler_3.12.0 Yu et al., 2012 clusterProfiler RRID:SCR_016884 Software, algorithm pheatmap_1.0.12 https://cran.r-project.org/web/ packages/pheatmap/ pheatmap RRID:SCR_016418 Software, algorithm CellPhoneDB_2.1.7 Efremova et al., 2020 CellPhoneDB RRID:SCR_017054 Software, algorithm CellChat_1.1.3 Jin et al., 2021 CellChat 1.1.3 Software, algorithm symphony_1.0 Kang et al., 2021 symphony 1.0 Software, algorithm MetaNeighbor_1.10.0 Crow et al., 2018 MetaNeighbor RRID:SCR_016727 Software, algorithm iMAP_1.0.0 Wang et al., 2021b iMAP 1.0.0 Software, algorithm scmap_ 1.16.0 Kiselev et al., 2018 Scmap RRID:SCR_017338 Software, algorithm enrichplot_1.4.0 Yu, 2019 enrichplot 1.4.0 Software, algorithm Imaris_8.4 Bitplane Imaris RRID:SCR_007370 Software, algorithm FlowJo_10 BD Bioscience FlowJo RRID:SCR_008520 Software, algorithm ImageJ_ 1.8.0 National Institutes of Health ImageJ RRID:SCR_003070 Other DAPI (4',6- Diamidino- 2- Phenylindole, Dihydrochloride) Thermo Fisher Cat#D1306 IF (0.5 μg/mL) Other Corn oil Sigma- Aldrich Cat#PHR2897 Tamoxifen dissolution Other Lymphocyte Separation Medium TBD Science Cat#LTS1077 Liver cell isolation Continued .. C57BL/6- Tg(Pf4- cre)Q3Rsko/J (Pf4Cre), C57BL/6- Gt(ROSA) 26Sortm1(HBEGF) Awai/J (Rosa26fs- iDTR), C57BL/6-Gt(ROSA)26Sortm4(ACTB- tdTomato,-EGFP)Luo/J (Rosa26fs- mTmG), Gt(ROSA)26Sortm9(CAGtdTomato)Hze (Rosa26fs- tdTomato), CXCL12tm2.1Sjm/J (Cxcl12DsRed) and C57BL/6- Tg(TcraTcrb)1,100Mjb/J (OT- I) mice were obtained from the Jackson Laboratory.

    Cell Isolation:

    Article Title: CXCR4high megakaryocytes regulate host-defense immunity against bacterial pathogens
    Article Snippet: DOI: https://doi.org/10.7554/eLife.78662 14 of 27 Reagent type (species) or resource Designation Source or reference Identifiers Additional information Antibody Anti- Rabbit AF488 (rabbit polyclonal) Invitrogen Cat#R37118 RRID:AB_2556546 IF (1:1000) Antibody Anti- OVA257- 264 (SIINFEKL) peptide bound to H- 2Kb (mouse monoclonal) Invitrogen Cat#17- 5743- 82 RRID:AB_1311286 FACS (1 μl per test) Antibody Anti- IL- 2 (mouse monoclonal) eBioscience Cat#25- 7021- 80 RRID:AB_1235007 FACS (1 μl per test) Chemical compound, drug Diphtheria toxin (DT) Sigma- Aldrich Cat#D0564- 1MG 40 μg kg–1 body mass Chemical compound, drug BrdU (5- Bromo- 2 ́-Deoxyuridine) Sigma- Aldrich Cat#B5002- 250mg 125 mg kg–1 body mass Chemical compound, drug CFSE (5- Carboxyfluorescein, Succinimidyl Ester) Invitrogen Cat#C2210 2.5 μM Chemical compound, drug GM- CSF Abbkine Cat#PRP2116 10 ng ml–1 Chemical compound, drug IL- 4 novoprotein Cat#CK15 10 ng ml–1 Chemical compound, drug Tamoxifen Sigma- Aldrich Cat#T5648 20 mg ml–1 corn oil Commercial kit Chromium Single Cell 3′ GEM, Library & Gel Bead Kit v3 10 x Genomics PN- 1000075 Commercial kit Chromium Chip B Single Cell Kit 10 x Genomics PN- 1000074 Cell line (Mus musculus) NCTC clone 929 ATCC CCL- 1 RRID:CVCL_0462 Cell line (Mus musculus) B3Z hybridoma CD8 T cell Dr. Nilabh Shastri Other scRNA sequencing data (raw and processed data) This paper GEO: GSE168224 Genetic reagent (Mus musculus) C57BL/6 J Shanghai Model Organisms Genetic reagent (Mus musculus) Tg(Pf4- icre)Q3Rsko/J (Pf4Cre) Jackson Laboratory Stock No: 008535 Genetic reagent (Mus musculus) Gt(ROSA) 26Sortm1(HBEGF) Awai/J (Rosa26fs- iDTR) Jackson Laboratory Stock No: 007900 Genetic reagent (Mus musculus) Gt(ROSA)26Sortm4(ACTBtdTomato,-EGFP)Luo/J (Rosa26fsmTmG) Jackson Laboratory Stock No: 007576 Genetic reagent (Mus musculus) Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J (Rosa26fs- tdTomato) Jackson Laboratory Stock No: 007905 Genetic reagent (Mus musculus) SclCreER mice Göthert et al., 2005 Genetic reagent (Mus musculus) Cxcl12tm2.1Sjm/J (Cxcl12fs- DsRed) Jackson Laboratory Stock No: 022458 Genetic reagent (Mus musculus) C57BL/6- Tg(TcraTcrb)1,100Mjb/J (OT- I) Jackson Laboratory Stock No: 003831 Strain, strain background (L. monocytogenes) 10403 S Bishop and Hinrichs, 1987 Software, algorithm Cell ranger_3.0.2 10 x Genomics tenx RRID:SCR_01695 Software, algorithm R_3.6.3 https://cran.r-project.org/ R 3.6.3 Continued Continued on next page Wang, Xie, Wang et al. eLife 2022;11:e78662. .. DOI: https://doi.org/10.7554/eLife.78662 15 of 27 Reagent type (species) or resource Designation Source or reference Identifiers Additional information Software, algorithm Seurat_3.0.2 Butler et al., 2018 Seurat RRID:SCR_016341 Software, algorithm ggplot2_3.2.0 https://cran.r-project.org/web/ packages/ggplot2/index.html ggplot2 RRID:SCR_014601 Software, algorithm clusterProfiler_3.12.0 Yu et al., 2012 clusterProfiler RRID:SCR_016884 Software, algorithm pheatmap_1.0.12 https://cran.r-project.org/web/ packages/pheatmap/ pheatmap RRID:SCR_016418 Software, algorithm CellPhoneDB_2.1.7 Efremova et al., 2020 CellPhoneDB RRID:SCR_017054 Software, algorithm CellChat_1.1.3 Jin et al., 2021 CellChat 1.1.3 Software, algorithm symphony_1.0 Kang et al., 2021 symphony 1.0 Software, algorithm MetaNeighbor_1.10.0 Crow et al., 2018 MetaNeighbor RRID:SCR_016727 Software, algorithm iMAP_1.0.0 Wang et al., 2021b iMAP 1.0.0 Software, algorithm scmap_ 1.16.0 Kiselev et al., 2018 Scmap RRID:SCR_017338 Software, algorithm enrichplot_1.4.0 Yu, 2019 enrichplot 1.4.0 Software, algorithm Imaris_8.4 Bitplane Imaris RRID:SCR_007370 Software, algorithm FlowJo_10 BD Bioscience FlowJo RRID:SCR_008520 Software, algorithm ImageJ_ 1.8.0 National Institutes of Health ImageJ RRID:SCR_003070 Other DAPI (4',6- Diamidino- 2- Phenylindole, Dihydrochloride) Thermo Fisher Cat#D1306 IF (0.5 μg/mL) Other Corn oil Sigma- Aldrich Cat#PHR2897 Tamoxifen dissolution Other Lymphocyte Separation Medium TBD Science Cat#LTS1077 Liver cell isolation Continued .. C57BL/6- Tg(Pf4- cre)Q3Rsko/J (Pf4Cre), C57BL/6- Gt(ROSA) 26Sortm1(HBEGF) Awai/J (Rosa26fs- iDTR), C57BL/6-Gt(ROSA)26Sortm4(ACTB- tdTomato,-EGFP)Luo/J (Rosa26fs- mTmG), Gt(ROSA)26Sortm9(CAGtdTomato)Hze (Rosa26fs- tdTomato), CXCL12tm2.1Sjm/J (Cxcl12DsRed) and C57BL/6- Tg(TcraTcrb)1,100Mjb/J (OT- I) mice were obtained from the Jackson Laboratory.



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    2019 enrichplot 1 4 0 software  (Oxford Instruments)
    99
    Oxford Instruments 2019 enrichplot 1 4 0 software
    2019 Enrichplot 1 4 0 Software, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/2019+enrichplot+1+4+0+software/Imaris/10__7554_slash_elife__78662-233-108-113
    Average 99 stars, based on 1 article reviews
    2019 enrichplot 1 4 0 software - by Bioz Stars, 2026-11
    99/100 stars
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