Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference |
Identifiers | Additional information |
|---|---|---|---|---|
| Strain | Mouse: B6 (C57BL/Ka-Thy1.1-CD45.1) | The Jackson Laboratory | JAX: 000406 | RRID:IMSR_JAX:000406 |
| Strain | Mouse: NSG (NOD.Cg-Prkdcscid Il2rgtm1Wjl/SzJ) | The Jackson Laboratory | JAX: 005557 | RRID:IMSR_JAX:005557 |
| Strain | Mouse: GFP (C57BL/6-Tg(CAG-EGFP)1Osb/J) | The Jackson Laboratory | JAX: 003291 | RRID:IMSR_JAX:003291 |
| Strain | Mouse: Actin-CreERt Rosa26-Rainbow (homozygous) | In-house | N/A | |
| Antibody | Anti-Mouse Ly-6A/E (Sca-1) APC (clone: D7) | ThermoFisher | Cat#: 17–5981 | FACS 1:200 (RRID:AB_469487) |
| Antibody | Anti-Mouse Ly-6A/E (Sca-1) Alexa Fluor 700 (clone: D7) | ThermoFisher | Cat#: 56–5981 | FACS 1:200 (RRID:AB_657837) |
| Antibody | Anti-Mouse Ly-6A/E (Sca-1) PE/Cy7 (clone: D7) | ThermoFisher | Cat#: 25–5981 | FACS 1:200 (RRID:AB_469669) |
| Antibody | Anti-Mouse CD45 FITC (clone: 30-F11) | ThermoFisher | Cat#: 11–0451 | FACS 1:200 (RRID:AB_465050) |
| Antibody | Anti-Mouse CD45 APC (clone: 30-F11) | ThermoFisher | Cat#: 17–0451 | FACS 1:200 (RRID:AB_469393) |
| Antibody | Anti-Mouse CD45 PE/Cy5 (clone: 30-F11) | ThermoFisher | Cat#: 15–0451 | FACS 1:200 (RRID:AB_468751) |
| Antibody | Anti-Mouse CD31 (PECAM-1) FITC (clone: 390) | ThermoFisher | Cat#: 11–0311 | FACS 1:200 (RRID:AB_465011) |
| Antibody | Anti-Mouse CD31 (PECAM-1) APC (clone: 390) | ThermoFisher | Cat#: 17–0311 | FACS 1:200 (RRID:AB_657735) |
| Antibody | Anti-Mouse TER-119 PE/Cy5 (clone: TER-119) | ThermoFisher | Cat#: 15–5921 | FACS 1:200 (RRID:AB_468811) |
| Antibody | Anti-Mouse CD140a (PDGFRA) APC (clone: APA5) | ThermoFisher | Cat#: 17–1401 | FACS 1:100 (RRID:AB_529482) |
| Antibody | Anti-Mouse CD24 APC-eFluor 780 (clone: M1/69) | ThermoFisher | Cat#: 47–0242 | FACS 1:200 (RRID:AB_10853172) |
| Antibody | Anti-Mouse CD51 PE (clone: RMV7) | ThermoFisher | Cat#: 12–0512 | FACS 1:100 (RRID:AB_465703) |
| Antibody | Anti-Mouse CD90.1 APC-eFluor 780 (clone: HIS51) | ThermoFisher | Cat#: 47–0900 | FACS 1:100 (RRID:AB_1272256) |
| Antibody | Anti-Mouse CD90.2 APC-eFluor 780 (clone: 53–2.1) | ThermoFisher | Cat#: 47–0902 | FACS 1:100 (RRID:AB_1272187) |
| Antibody | Anti-Mouse BP1 APC (clone: 6C3) | ThermoFisher | Cat#: 17–5891 | FACS 1:100 (RRID:AB_2762697) |
| Antibody | Anti-Mouse CD105 (Endoglin) Biotin (clone: MJ7/18) | ThermoFisher | Cat#: 13–1051 | FACS 1:100 (RRID:AB_466555) |
| Antibody | Anti-Mouse Tie2 (clone: Tek4) | ThermoFisher | Cat#: 14–5987 | FACS 1:20 (RRID:AB_467792) |
| Antibody | Anti-Mouse Leptin R Biotinylated Antibody (goat polyclonal) | R and D Systems | Cat#: BAF497 | FACS 1:50 (RRID:AB_2296953) |
| Antibody | Goat anti-GFP (polyclonal) | NovusBiologicals | Cat#: NB100-1770 | IF 1:200 (RRID:AB_10128178) |
| Antibody | Rabbit anti-Perilipin (polyclonal) | ThermoFisher | Cat#: PA5-72921 | IF 1:200 (RRID:AB_2718775) |
| Antibody | Rabbit anti-Osteocalcin (polyclonal) | Abcam | Cat#: ab93876 | IF 1:200 (RRID:AB_10675660) |
| Antibody | Rabbit anti-Collagen II (polyclonal) | Abcam | Cat#: ab34712 | IF 1:200 (RRID:AB_731688) |
| Antibody | Rat anti-Endomucin (Clone: V.7C7) | ThermoFisher | Car#: 14-5851-82 | IF 1:400 (RRID:AB_891527) |
| Antibody | Alexa Fluor 488 donkey anti-goat (polyclonal) | ThermoFisher | Cat#: A32814 | IF 1:500 (RRID:AB_2762838) |
| Antibody | Alexa Fluor 594 donkey anti-rabbit (polyclonal) | ThermoFisher | Cat#: A21207 | IF 1:500 (RRID:AB_141637) |
| Antibody | Alexa Fluor 700 goat anti-rabbit (polyclonal) | ThermoFisher | Cat#: A21038 | IF 1:500 (RRID:AB_2535709) |
| Antibody | Alexa Flour 488 goat anti-rat (polyclonal) | Abcam | Cat#: ab150157 | IF 1:500 (RRID:AB_2722511) |
| Sequence-based reagent | Oligo-dT30VN | IDT | N/A | (5’-AAGCAGTGGTATCAACGCA GAGTACT30VN-3’) |
| Sequence-based reagent | Template-switching oligonucleotide (TSO) | Exiqon | N/A | (5’-AAGCAGTGGTATCAACGCAGAGTACATrGrG+G-3’) |
| Sequence-based reagent | ISPCR primers | IDT | N/A | (5’-AAGCAGTGGTATCAACGCAGAGT-3’) |
| Sequence-based reagent | dNTP Set (100 mM) | ThermoFisher | Cat#: 10297-018A | |
| Sequence-based reagent | ERCC (External RNA Controls Consortium) ExFold RNA Spike-In Mixes |
ThermoFisher | Cat#: 4456740 | |
| Peptide, recombinant protein | SMARTScribe reverse transcriptase | Clontech | Cat#: 639538 | |
| Peptide, recombinant protein | Streptavidin PE-Cyanine7 Conjugate | ThermoFisher | Cat#: 25-4317-82 | |
| Peptide, recombinant protein | Epidermal growth factor | PeproTech | Cat#: 315–09 | |
| Peptide, recombinant protein | Platelet-derived growth factor BB | PeproTech | Cat#: 315–18 | |
| Peptide, recombinant protein | Basic fibroblast growth factor | Sigma-Aldrich | Cat#: F0291 | |
| Peptide, recombinant protein | Transforming growth factor β1 | PeproTech | Cat#: 100–21 | |
| Commercial assay or kit | KAPA HiFi HotStart ReadyMix | Kapa Biosystems | Cat#: KK2602 | |
| Commercial assay or kit | HS NGS Fragment Kit (1–6000 bp), 1000 | Agilent | Cat#: DNF-474–1000 | |
| Commercial assay or kit | Nextera XT DNA Library Preparation kit | Illumina | Cat#: FC-131–1096 | |
| Commercial assay or kit | RNeasy Micro Kit | Qiagen | Cat#: 74004 | |
| Commercial assay or kit | RNAScope Multiplex Fluorescent V2 Assay | Acdbio | Cat#: 323100 | |
| Chemical compound | EDTA | ThermoFisher | Cat#: 15573–038 | |
| Chemical compound | Fluoromount-G | ThermoFisher | Cat#: 00-4958-02 | |
| Chemical compound | Paraformaldehyde (PFA) | Electron Microscopy Sciences |
Cat#: 15710 | |
| Chemical compound | Matrigel | Corning | Cat#: CB40234A | |
| Chemical compound | Bovine serumalbumine (BSA) | Sigma-Aldrich | Cat#: A9647 | |
| Chemical compound | Triton X-100 (10%) | ThermoFisher | Cat#: 85111 | |
| Chemical compound | Recombinant RNase inhibitor | Clontech | Cat#: 2313B | |
| Chemical compound | Saffron | Sigma-Aldrich | Cat#: S8381-5G | |
| Chemical compound | Acid Fuchsin | Sigma-Aldrich | Cat#: F8129-25G | |
| Chemical compound | Acid Red 73 | Sigma-Aldrich | Cat#: 49823–25 MG | |
| Chemical compound | Phosphotungstic Acid | Sigma-Aldrich | Cat#: P4006 | |
| Chemical compound | Hematoxylin | Sigma-Aldrich | Cat#: MHS32-1L | |
| Chemical compound | Shandon Eosin Y | ThermoFisher | Cat#: 6766009 | |
| Chemical compound | Type II collagenase | Sigma-Aldrich | Cat#: C6885 | |
| Chemical compound | 100 U/ml DNase I | Worthington | Cat#: NC9199796 | |
| Chemical compound | Fetal bovine serum (FBS) | ThermoFisher | Cat#: 16000–069 | |
| Chemical compound | Optimal Cutting Temperature compound (OCT) | ThermoFisher | Cat#: 23-730-571 | |
| Chemical compound | Penicillin-Streptomycin Solution | ThermoFisher | Cat#: 15140–122 | |
| Chemical compound | Media 199 (M199) | Sigma-Aldrich | Cat#: C6885 | |
| Chemical compound | Agencourt AMPure XP beads | Beckman Coulter | Cat#: A63882 | |
| Chemical compound | UltraPure DNase/RNase-Free Distilled Water | ThermoFisher | Cat#: 10977023 | |
| Chemical compound | TRIzol LS | ThermoFisher | Cat#: 10296028 | |
| Chemical compound | Oil Red O | Sigma-Aldrich | Cat#: O0625 | |
| Chemical compound | Alizarin Red S | Carl Roth | Cat#: A5533-25G | |
| Chemical compound | Alcian Blue 8GX | Sigma-Aldrich | Cat#: A3157 | |
| Chemical compound | Crystal Violet | Sigma-Aldrich | Cat#: C0775 | |
| Chemical compound | MCDB201 Media | Sigma-Aldrich | Cat#: M6770 | |
| Chemical compound | Dexamethasone | Sigma-Aldrich | Cat#: D-4902 | |
| Chemical compound | L-Ascorbic acid 2-phosphate | Sigma-Aldrich | Cat#: A8960 | |
| Chemical compound | Insulin-transferrin-selenium (ITS) mix | Sigma-Aldrich | Cat#: I3146 | |
| Chemical compound | Linoleic acid-Albumin | Sigma-Aldrich | Cat#: L9530 | |
| Chemical compound | Indomethacin | Sigma-Aldrich | Cat#: I7378 | |
| Peptide, recombinant protein | Recombinant Human Insulin | Roche | Cat#: 11376497001 | |
| Chemical compound | Isobutylmethylxanthine | Sigma-Aldrich | Cat#: I5879 | |
| Chemical compound | 3,3′,5-triiodo-L-thyronine (T3) | Sigma-Aldrich | Cat#: T6397 | |
| Chemical compound | β-glycerophosphate | Sigma-Aldrich | Cat#: G9891 | |
| Chemical compound | L-thyroxine | Sigma-Aldrich | Cat#: T0397 | |
| Chemical compound | Betaine | Sigma-Aldrich | Cat#: B0300 | |
| Chemical compound | DTT (DL-dithiothreitol) 100 mM | Promega | Cat#: P1171 | |
| Software | ImageJ | NIH | http://wsr.imagej.net/distros/osx/ij152-osx-java8.zip | RRID:SCR_003070 |
| Software | FlowJo | FLOWJ LLC | https://www.flowjo.com/ | RRID:SCR_008520 |
| Software | BD FACSAria II | BD Biosciences | http://www.bdbiosciences.com/cn/home | |
| Software | Gene Expression Commons (GEXC) database | Seita et al., 2012 | https://gexc.riken.jp | |
| Software | bcl2fastq2 2.18 | Illumina | https://support.illumina.com/sequencing/sequencing_software/bcl2fastq-conversion-software.html | RRID:SCR_015058 |
| Software | Skewer | Jiang et al., 2014 | https://sourceforge.net/projects/skewer | RRID:SCR_001151 |
| Software | STAR 2.4 | Dobin et al., 2013 | https://github.com/alexdobin/STAR | |
| Software | RSEM 1.2.21 | Li and Dewey, 2011 | https://deweylab.github.io/RSEM/ | RRID:SCR_013027 |
| Software | Scanpy 1.8. | Wolf et al., 2018 | https://github.com/theislab/scanpy | RRID:SCR_018139 |
| Software | GraphPad Prism 9.02 | GraphPad Software | http://www.graphpad.com/scientificsoftware/prism | RRID:SCR_002798 |
| Other | RNAscope Probe-Mm-Cdh13-C3 | Acdbio | Cat#: 443251 | RNAscope 1:1500 |
| Other | RNAscope Probe-Mm-Wif1-C3 | Acdbio | Cat#: 412361-C3 | RNAscope 1:1500 |
| Other | 4′ , 6-diamidino-2-phenylindole (DAPI) | Biolegend | Cat#: 422801 | 1 ug/ml |
| Other | Propidium iodide (PI) | Biolegend | Cat#: 421301 | 1 ug/ml |