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    Jackson Laboratory jackson laboratory jax030201
    Jackson Laboratory Jax030201, supplied by Jackson Laboratory, 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/jackson+laboratory+jax030201/jackson+jax030201+laboratory/pm33508229-573-57-61
    Average 86 stars, based on 1 article reviews
    jackson laboratory jax030201 - by Bioz Stars, 2026-11
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    Sequencing:

    Article Title: Functional characterization of the dural sinuses as a neuroimmune interface.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll ..

    Gene Expression:

    Article Title: Functional characterization of the dural sinuses as a neuroimmune interface.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll ..

    Software:

    Article Title: Functional characterization of the dural sinuses as a neuroimmune interface.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll ..

    Single Cell:

    Article Title: Functional characterization of the dural sinuses as a neuroimmune interface.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Zombie NIR Fixable Viability Kit BioLegend Cat#423106 Zombie Aqua Fixable Viability Kit BioLegend Cat#423102 LIVE/DEAD Fixable Blue Dead Cell Stain Kit Thermo Fisher Ca#L23105 Purified anti-Mouse CD16/CD32 (Fc block) BioLegend Cat#101302 Seurm-FBS Certified US origin Thermo Fisher Cat#16000044 eBioscience Cell Stimulation Cocktail eBioscience Cat#00-4970-03 Brefeldin A Solution eBioscience Cat#00-4506-51 Foxp3 / Transcription Factor Staining Buffer Set Kit eBioscience Cat#00-5523-00 LS columns Miltenyi Biotec Cat#130-042-401 MS columns Miltenyi Biotec Cat#130-042-201 Purified NA/LE Hamster Anti-Mouse CD28 BD Biosciences Cat#553294 Purified NA/LE Hamster Anti-Mouse CD3e BD Biosciences Cat#553057 Alt-R CRISPR-Cas9 Negative Control crRNA #1 IDT Cat#1072544 Alt-R CRISPR-Cas9 tracrRNA IDT Cat#1072532 TrueCut Cas9 Protein v2 Thermo Fisher Cat#A36499 Recombinant Murine IL-2 PeproTech Cat#212-12-500ug Corning HTS Transwell 96 well permeable supports Corning Cat#CLS3388 Recombinant Murine SDF-1a (CXCL12) PeproTech Cat#250-20A InVivoMAb rat IgG1 isotype control BioXCell Cat#BE0088 InVivoMAb rat IgG2b isotope control BioXCell Cat#BE0090 InVivoMAb anti-mouse/human VLA4 BioXCell Cat#BE0071 InVivo mAb anti-mouse LFA1a BioXCell Cat#BE0005-1 InVivoMAb anti-mouse PSGL-1 BioXCell Cat#BE0186-5MG Maxpar Fix and Perm Buffer Fluidigm Cat#201067 Maxpar Cell Staining Buffer Fluidigm Cat#201068 Cell-ID Cisplatin Fluidigm Cat#201064 Maxpar Nuclear Antigen Staining Buffer Set Fluidigm Cat#201063 Cell-ID Intercalator-Ir—125 mM Fluidigm Cat#201192A Invitrogen Ambion UltraPure BSA Thermo Fisher Cat#AM2616 Trypan blue, 0.4% Thermo Fisher Cat#15250061 Microcon-30kDa Centrifugal Filter Unit with Ultracel-30 membrane Millipore Cat#MRCF0R030 Critical commercial assays CD4+ T Cell Isolation Kit, mouse Miltenyi Biotec Cat#130-104-454 CD11c MiroBeads, UltraPure, mouse Miltenyi Biotec Cat#130-125-835 Cell-ID 20-Plex Pd Barcoding Kit Fluidigm Cat#201060 Chromium Single Cell 30 Library & Gel Bead Kit v2 10X Genomics Cat#PN-120267 Chromium Single Cell 30 Library & Gel Bead Kit v3 10X Genomics Cat#PN-120267 Amaxa P4 Primary Cell 4D-Nucleofector Kit Lonza Cat#V4XP-4024 Pierce Quantitative Fluorometric Peptide Assay Thermo Fisher Cat#23290 RNAscope Multiplex Fluorescent Reagent Kit V2 Advanced Cell Diagnostics Cat#323110 Tyramide Signal Amplification (TSA) Plus Fluorescence Palette Kit Perkin Elmer Cat#NEL760001KT (Continued on next page) ll Cell 184, 1000–1016.e1–e16, February 18, 2021 e5 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll .. REAGENT or RESOURCE SOURCE IDENTIFIER Deposited data Fastq files and quantified gene counts for single cell sequencing Gene Expression Omnibus (GEO) GSE144175 Experimental models: organisms/strains C57BL/6 The Jackson Laboratory JAX000664 B6(FVB)-Cxcl12tm1.1Link/J The Jackson Laboratory JAX021773 B6(Cg)-Rag2tm1.1Cgn/J The Jackson Laboratory JAX008449 Cxcl12tm2.1Sjm/J The Jackson Laboratory JAX022458 B6.Cg-Tg(TcraTcrb)425Cbn/J The Jackson Laboratory JAX004194 B6.PL-Thy1a/CyJ The Jackson Laboratory JAX000406 B6.Cg-Pdgfrbtm1.1(cre/ERT2)Csln/J The Jackson Laboratory JAX030201 C57BL/6-Tg(UBC-GFP)30Scha/J The Jackson Laboratory JAX004353 B6.Cg-Gt(ROSA)26Sortm9(CAGtdTomato)Hze/J The Jackson Laboratory JAX 007909 C57BL/6-Tg(Tcra2D2,Tcrb2D2)1Kuch/J The Jackson Laboratory JAX 006912 C57BL/6-Tg(Nr4a1-EGFP/cre)820Khog/J The Jackson Laboratory JAX 016617 B6SJLTg(APPSwFlLon,PSEN1*M146L*L286V) 6799Vas/Mmjax MMRRC/ The Jackson Laboratory MMRRC 34840-JAX Oligonucleotides 30- > 50 CXCR4-1 ttgactggcatagtcggcaa This paper IDT 30- > 50 CXCR4-2 ttgtcatcacactccccttc This paper IDT 30- > 50 CXCR4-3 tcgagagcatcgtgcacaag This paper IDT Software and algorithms ImageJ Schneider et al., 2012 https://imagej.nih.gov/ij/ FIJI package for ImageJ Schneider et al., 2012 https://imagej.net/Fiji FlowJo v10.3 Tree Star https://www.flowjo.com/ Trackmate Plugin for ImageJ v4.0.0 Tinevez et al., 2017 https://imagej.net/TrackMate MATLAB MathWorks https://www.mathworks.com/products/ matlab.html Zunder Lab single-cell debarcoder Zunder et al., 2015 https://github.com/zunderlab/ single-cell-debarcoder Cytobank Beckman Coulter https://www.cytobank.org/ R Studio v3 R Studio https://rstudio.com/ Cytofkit Package for Bioconductor in R Chen et al., 2016 https://bioconductor.riken.jp/packages/3.7/ bioc/html/cytofkit.html Illumina Bcl2fastq software Illumina https://support.illumina.com/downloads/ bcl2fastq-conversion-software-v2-20.html Cellranger software pipeline v2.20 and v.4.0.0 10X Genomics https://support.10xgenomics.com/ single-cell-gene-expression/software/ pipelines/latest/installation Seurat pipeline for R studio v.2.3.4 and 3.0 Butler et al., 2018 https://satijalab.org/seurat/install.html Prism v8 GraphPad https://www.graphpad.com/ scientific-software/prism/ Primer-Blast NCBI-NIH https://www.ncbi.nlm.nih.gov/tools/ primer-blast/ MaxQuant v1.6.17.0 Tyanova et al., 2016 https://www.maxquant.org/ The Human Protein Atlas (accessed 11/ 15/2020) Uhlén et al., 2015 https://www.proteinatlas.org/ humanproteome/brain/human+brain ll e6 Cell 184, 1000–1016.e1–e16, February 18, 2021 Article ll



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