Key resources table.
| Reagent type (species) or resource | Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Strain, strain background (Mus musculus) | C57BL/6J CD45.1+ | Jackson Laboratory | B6.SJL-Ptprca Pepcb/BoyJ, Stock# 002014, B6 Cd45.1 | Male |
| Strain, strain background( M. musculus) | C57BL/6J CD45.2+ | Jackson Laboratory | C57BL/6J, Stock# 000664, B6 | Male |
| Strain, strain background (M. musculus) | Rosa26CreERT2;mT/mG | Jackson Laboratory | STOCK Gt(ROSA)26Sortm4(ACTB-tdTomato,-EGFP)Luo/J, Stock# 007576, mT/mG, mTmG | Male |
| Strain, strain background (Escherichia coli) | ElectroMAX Stbl4 Competent Cells | Thermo Fisher Scientific | Cat# 11635018 | |
| Recombinant DNA reagent | pRRL-CMV-GFP plasmid (Dull et al., 1998) | PMID:9765382 | Ton Schumacher lab, NKI, Amsterdam | |
| Cell line (human) | HEK293T cells | Other | Philippe Benaroch lab, Institute Curie, Paris | |
| Recombinant DNA reagent | p8.9-QV | Other | Philippe Benaroch lab, Institute Curie, Paris | |
| Recombinant DNA reagent | pVSVG | Other | Philippe Benaroch lab, Institute Curie, Paris | |
| Chemical compound, drug | Anti-CD117 magnetic beads | Miltenyi | Cat# 130-091-224; RRID:AB_2753213 | |
| Chemical compound, drug | Propidium iodide | Sigma | Cat# 81845 | |
| Chemical compound, drug | StemSpanMedium SFEM | STEMCELL Technologies | Cat# 9650 | |
| Chemical compound, drug | Mouse recombinant SCF | STEMCELL Technologies | Cat# 78064.2 | |
| Chemical compound, drug | Eprex, erythropoietin alpha | Janssen | ||
| Chemical compound, drug | Anti-biotinylated beads | Miltenyi | Cat# 130090485; RRID:AB_244365 | |
| Antibody | Anti-Ter119-biotin (rat, monoclonal) | BD Biosciences | Cat# 553672, clone TER119; RRID:AB_394985 | (1:100) |
| Antibody | Anti-cd45.1-PE (mouse, monoclonal) | BD Biosciences | Cat# 553776, clone A20; RRID:AB_395044 | (1:100) |
| Antibody | Anti-Ter119-PE-Cy7 (rat, monoclonal) | BD Biosciences | Cat# 557853, clone TER119; RRID:AB_396898 | (1:100) |
| Antibody | Anti-cd11c-APC (hamster, monoclonal) | eBioscience | Cat# 17-0114-82, clone N418; RRID:AB_469346 | (1:100) |
| Antibody | Anti-cd19-APC-Cy7 (rat, monoclonal) | BD Biosciences | Cat# 557655, clone ID3; RRID:AB_396770 | (1:100) |
| Antibody | Anti-cd11b-PerCP-Cy5.5 (rat, monoclonal) | eBioscience | Cat# 45-0112-82, clone M1/70; RRID:AB_953558 | (1:100) |
| Antibody | Anti-cd117-APC (rat, monoclonal) | BioLegend | Cat# 105812, clone 2B8; RRID:AB_313221 | (1:100) |
| Antibody | Anti-cd135-PE (rat, monoclonal) | eBioscience | Cat# 12 135182, clone A2F10; RRID:AB_465859 | (100) |
| Antibody | Anti-cd135-PE-Cy5 (rat, monoclonal) | Life Technologies | Cat# 15_1351_82, clone A2F10; RRID:AB_494219 | (1:100) |
| Antibody | Anti-Sca1-PacificBlue (rat, monoclonal) | BioLegend | Cat# 122520, clone D7; RRID:AB_2143237 | (1:200) |
| Antibody | Anti-cd150-PE-Cy7 (rat, monoclonal) | BioLegend | Cat# 115914, clone TC15-12F12.2; RRID:AB_439797 | (1:100) |
| Antibody | Anti-cd44-PE (rat, monoclonal) | BD Biosciences | Cat# 553134, clone IM7; RRID:AB_394649 | (100) |
| Antibody | Anti-cd41-BV510 (rat, monoclonal) | BD Biosciences | Cat# 740136, clone MVVREG30; RRID:AB_2739892 | (1:100) |
| Antibody | Anti-Siglec-F-PE-CF594 (rat, monoclonal) | BD Biosciences | Cat# 562757, clone E50-2440; RRID:AB_2687994 | (1:200) |
| Antibody | Anti-Ly6g-BV510 (rat, monoclonal) | BioLegend | Cat# 127633. clone 1A8; RRID:AB_2562937 | (1:200) |
| Antibody | Anti-cd115-PE (rat, monoclonal) | BioLegend | Cat# 135505, clone AFS98; RRID:AB_1937254 | (1:200) |
| Antibody | Anti-cd48- APC-Cy7 (hamster, monoclonal) | BD Biosciences | Cat# 561242clone HM48-1; RRID:AB_10644381 | (1:100) |
| Chemical compound, drug | Viagen Direct PCR Lysis Reagent (cell) | Euromedex | Cat# 301C | |
| Chemical compound, drug | Proteinase K Solution RNA grade | Invitrogen | Cat# 25530-049 | |
| Sequence-based reagent | top-LIB | This paper | PCR primer | TGCTGCCGTCAACTAGA ACA |
| Sequence-based reagent | bot-LIB | This paper | PCR primer | GATCTCGAATCAGGCGCTTA |
| Sequence-based reagent | PCR2-Read1-plate-index-forward | This paper | PCR primer | ACACTCTTTCCCTACACGACGCTCTTCCGAT CTNNNNCTAGAACACTCGAGATCAG |
| Sequence-based reagent | PCR2-Read2-reverse | This paper | PCR primer | GTGACTGGAGTTCAGACGTGTGCTCTTCCGAT CGATCTCGAATCAGGCGCTTA |
| Sequence-based reagent | PCR3-P5-forward | This paper | PCR primer | AATGATA CGGCGACCACCGAGATCTACACTCTTTCCC TACACGACGCTCTTCCGATCT |
| Sequence-based reagent | PCR3-P7-sample-index-reverse | This paper | PCR primer | CAAGCAGAAGACGGCATACGAGANNNNNNN GTGACTGGAGTTCAGA CGTGCTCTTCCGATC |
| Commercial assay or kit | Agencourt AMPure XP system | Beckman Coulter | Cat# A63881 | |
| Commercial assay or kit | Chromium Single Cell 3′ Reagent Kits v2 Chemistry | 10X Genomics | ||
| Software, algorithm | R-3.4.0 | Other | R Development Core Team (2019) http://www.R-project.org |
|
| Software, algorithm | GraphPad Prism version 8.0 for Mac | GraphPad | RRID:SCR_002798 | GraphPad Software, La Jolla, CA, https://www.graphpad.com |
| Software, algorithm | XCALIBR | Other | https://github.com/NKI-GCF/xcalibr; Netherlands Cancer Institute - Genomics Core Facilty, 2015 | |
| Software, algorithm | Cellranger v3 | 10X Genomics | RRID:SCR_017344 | |
| Software, algorithm | Seurat v3 | doi:10.1016/j.cell.2019.05.031 | RRID:SCR_007322 |