Key resources table.
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Anti-mouse CD8a PerCP-C5.5 | BD Pharmingen | Catalog # 551162 |
| Anti-mouse CD4 PerCP-C5.5 | BD Pharmingen | Catalog # 550954 |
| Anti-mouse TER-119 PerCP-C5.5 | BD Pharmingen | Catalog # 560512 |
| Anti-mouse Ly-6G (Gr-1) PerCP-C5.5 | BD Pharmingen | Catalog # 560602 |
| Anti-mouse CD11b (Mac-1) PerCP-C5.5 | BD Pharmingen | Catalog # 550993 |
| Anti-mouse CD45R/B220 PerCP-C5.5 | BD Pharmingen | Catalog # 552771 |
| Anti-mouse cKit APC | eBioscience | Catalog # 17–1171-83 |
| Anti-mouse Sca-1 PE | eBbioscience | Catalog # 25–5981-82 |
| Anti-mouse CD117 microbeads | Miltenyi | Catalog # 130–091224 |
| Anti-mouse CD45-FITC | BioLegend | Clone 30-F11; Catalog # 103108 |
| Anti-mouse F4/80 PE | BioLegend | Clone BM8; Catalog # 123110 |
| Anti-mouse CD206 PE | BioLegend | Clone C068C2; Catalog # 141705 |
| Anti-mouse laminin 2α | Abcam | Catalog # 11576 |
| Anti-mouse F4/80 | eBbioscience | Catalog # 14–4801-85 |
| Anti-mouse Fpr1/Fpr2 | Novus Biologicals | Catalog # NLS1878 |
| Anti-mouse eMHC | Developmental Studies Hybridoma Bank | F1.652 |
| Anti-mouse OPN | Novus Biologicals | Catalog # AF808 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| 4′,6-diamidino-2-phenylindole (DAPI) | Thermo Fisher Scientific | Catalog # D1306 |
| Propidium iodine | Thermo Fisher Scientific | Catalog # P3566 |
| heparin sodium salt | Sigma | Catalog # H3149 |
| Hoechst 33342 | Sigma | Catalog # B2261 |
| Critical Commercial Assays | ||
| Mouse OPN (SPP1) ELISA Kit | Thermo Scientific Pierce | Catalog # EMSPP1 |
| Deposited data | ||
| Raw and analyzed data | This paper | GEO: GSE196364 |
| Experimental Models: Organisms/Strains | ||
| Mouse: C57BL/6J | NIA | JAX strain # 000664 |
| Oligonucleotides | ||
| PCR primers for various genes | Table S7 | N/A |
| Software and Algorithms | ||
| Cell Ranger | 10x Genomics | https://support.10xgenomics.com/singlecell-geneexpression/software/downloads/latest |
| STAR | Dobin et al., 2013 | https://github.com/alexdobin/STAR |
| Seurat | Stuart et al., 2019 | https://satijalab.org/seurat/articles/install.html |
| Monocle3 | Trapnell, 2014 | https://cole-trapnelllab.github.io/monocle3/docs/installation/ |
| CellTalkDB | Shao et al., 2021 | https://github.com/ZJUFanLab/CellTalkDB |
| CellChat | Jin et al., 2021 | https://github.com/sqjin/CellChat |
| Gene Set Enrichment Analysis | Subramanian et al., 2005 | https://www.gseamsigdb.org/gsea/index.jsp |
| NicheNet | Browaeys el al., 2020 | https://github.com/saeyslab/nichenetr |
| Trim galore | Babraham Institute | https://github.com/FelixKrueger/TrimGalore |
| FeatureCounts | Liao et al., 2014 | https://subread.sourceforge.net/featureCounts.html |
| DESeq2 | Love et al., 2014 | https://bioconductor.org/packages/release/bioc/html/DESeq2.html |
| NIS Element Viewer | Nikon | https://www.microscope.healthcare.nikon.com/products/software/nis-elements/viewer |
| ImageJ | Schneider et al. | https://imagej.nih.gov/ij/ |
| Prism GraphPad | GraphPad Software | https://www.graphpad.com/features |