Reagents and tools table
| Reagent/resource | Reference or source | Identifier or catalog number |
|---|---|---|
| Experimental models | ||
|
C57BL/6J Sepp1KO (B6.Cg-Selenoptm1Rfb) Sepp1U40S/U40S (B6.Cg-Selenoptm3.1Rfb) Sepp1Δ240-361 (B6.Cg-Selenoptm4.1Rfb) Sepp1fl/fl (B6.Cg-Selenoptm3.1Rfb) LysMCre mice (B6.129P2-Lyz2tm1(cre)Ifo/J) LysMCre/+;Sepp1fl/fl CX3CR1gfp/+ |
Hill et al, 2003 Kurokawa et al, 2014 Hill et al, 2007 Hill et al, 2012 |
|
| Antibodies | ||
| Anti-a7-integrin Alexa Fluor 647-conjugated | AB lab, University of British Columbia | AB0000538 |
| Anti-CCL3 | Santa Cruz | sc-1383 |
| Anti-CD163 | Santa Cruz | sc-33560 |
| Anti-CD206 | Santa Cruz | sc-58987 |
| Anti-CD31 | Abcam | ab7388 |
| Anti-CD31 PE-conjugated | eBioscience | 12-0311-82 |
| Anti-CD34 FITC-conjugated | eBioscience | 11-0341-82 |
| Anti-CD45 | eBioscience | 25-0451-81 |
| Anti-CD45 PE-Cy7-conjugated | eBioscience | 25-0451-82 |
| Anti-CD64 | BD PharMingen | 558539 |
| Anti-Collagen I | Southern Biotech | 1310-01 |
| Anti-desmin antibody | Abcam | 32362 |
| Anti-eMHC/MYH3 | Santa | sc-53091 |
| Anti-F4/80 | Abcam | ab6640 |
| Anti-iNOS | Abcam | ab3523 |
| Anti-Ki67 | Abcam | 15580 |
| Anti-laminin | Sigma-Aldrich | L9393 |
| Anti-Ly6C | eBioscience | 12-5932-82 |
| Anti-Ly6C antibody APC-conjugated | eBioscience | 17-5932-82 |
| Anti-Pax7 (hybridoma) | DSHB | |
| Anti-PDGFRα | RD systems | AF1062 |
| Anti-perilipin | Abcam | ab3526 |
| Anti-Sca-1 PerCP-Cy5.5- conjugated | eBioscience | 45-5981-82 |
| Cy™3 AffiniPure® Donkey Anti-Mouse IgG (H + L) | Jackson ImmunoResearch | 715-165-150 |
| Alexa Fluor® 488 AffiniPure® Donkey Anti-Mouse IgG (H + L) | Jackson ImmunoResearch | 715-545-150 |
| Alexa Fluor® 488 AffiniPure® Goat Anti-Rabbit IgG (H + L) | Jackson ImmunoResearch | 111-545-003 |
| Cy™3 AffiniPure® Goat Anti-Rabbit IgG (H + L) | Jackson ImmunoResearch | 111-165-003 |
| Chemicals, enzymes, and other reagents | ||
| Cardiotoxin CTX | Latoxan | |
| Collagenase B | Roche Diagnostics GmbH | 11088807001 |
| Dispase | Roche Diagnostics GmBH | 0494207800 |
| FcR Blocking reagent | Miltenyi Biotec | 130059901 |
| Fluoromount G mounting medium | Interchim | FP-483331 |
| G/Ultroser | PALL Life Sciences | #15950017 |
| Hoechst solution | Sigma-Aldrich | B2261 |
| IFNγ | RD systems | 485-MI-100 |
| IL10 | RD systems | 417-ML-005 |
| Matrigel | Corning | 356231 |
| Ovation SoLo RNA-Seq Library Preparation Kit | Nugen/Tecan | |
| Picogreen | Thermofisher | P7589 |
| Software | ||
| FIJI | https://imagej.net/ | |
| Bcl2FastQ Demux Pipeline (UBP) (software version v2.19.1). | Illumina | |
| STAR version 2.6.1 d defaults. | Dobin et al, 2013 | |
| featureCounts version 1.6.4. | Liao et al, 2014 | |
| StringTie version 2.0. | Pertea et al, 2015 | |
| BioMart package. | Durinck et al, 2009 | |
| ESeq2 | Love et al, 2014 | |
| ComplexHeatmap package version 2.10.0 make_comb_mat function | Gu et al, 2016 | |
| PantaRhei package version 0.1.2 sankey diagram function | R | |
| fgsea package version 1.16.0 | Korotkevich et al, 2021 | |