KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Anti-mouse B220 (PE-Cy7); clone RA3–6B2 | BD Biosciences | Cat# 552772 |
| Anti-mouse CCR7 (BV421); clone 4B12 | Biolegend | Cat# 120120 |
| Anti-mouse CD3 (BUV395); clone145–2C11 | BD Biosciences | Cat# 563565 |
| Anti-mouse CD3 (Alexa700); clone 17A2 | Biolegend | Cat# 100216 |
| Anti-mouse CD4 (BUV395); clone RM4–4 | BD Biosciences | Cat# 740209 |
| Anti-mouse CD8 (APCeFluor780); clone 53–6.7 | eBioscience | Cat# 47-0081-82 |
| Anti-mouse CD11b (AF700); clone MI/70 | BD Biosciences | Cat# 557960 |
| Anti-mouse CD11c (PE); clone HL3 | BD Biosciences | Cat# 553802 |
| Anti-mouse CD16/32; clone 2.4G2 | BD Biosciences | Cat# 553142 |
| Anti-mouse CD19 (BUV395); clone 1D3 | BD Biosciences | Cat# 563557 |
| Anti-mouse CD39 (PE-Dazzle594); clone Duha59 | Biolegend | Cat# 143812 |
| Anti-mouse CD40 (AF647); clone 3/23 | Biolegend | Cat# 123613 |
| Anti-mouse CD44 (BUV737); clone IM7 | BD Biosciences | Cat# 564392 |
| Anti-mouse CD45 (BUV661); clone 30-F11 | BD Biosciences | Cat# 565079 |
| Anti-mouse CD64 (BV785); clone X54–5/7.1 | BD Biosciences | Cat# 741024 |
| Anti-mouse CD66a (BV605); clone CC1 | BD Biosciences | Cat# 750882 |
| Anti-mouse CD80 (PE-Dazzle594); clone 16–10A1 | BD Biosciences | Cat# 562504 |
| Anti-mouse CD86 (BV711); clone GL1 | BD Biosciences | Cat# 740688 |
| Anti-mouse CD172α (PerCP-eF710); clone P84 | Life Technologies | Cat# 46-1721-82 |
| Anti-mouse Eomes (PerCP-eF710); clone Dan11mag | Invitrogen | Cat# 46-4875-82 |
| Anti-mouse F4/80 (PE-Cy5); clone BM8 | eBioscience | Cat# 15-4801-82 |
| Anti-mouse IA/IE (AF488); clone M5/114.15.2 | Biolegend | Cat# 107616 |
| Anti-mouse LY6A/E (PE-CF594); clone D7 | BD Biosciences | Cat# 562730 |
| Anti-mouse Ly6C (APC-eF780); clone AL-21 | BD Biosciences | Cat# 560596 |
| Anti-mouse Ly6G (BUV563); clone 1A8 | BD Biosciences | Cat# 565707 |
| Anti-mouse NK1.1 (BUV395); clone PK136 | BD Biosciences | Cat# 564144 |
| Anti-mouse NKG2A (PE-Cy7); clone 16A11 | Biolegend | Cat# 142810 |
| Anti-mouse PD-1 (BV421); clone 29F.A12 | Biolegend | Cat# 135218 |
| Anti-mouse SiglecH (BUV805); clone 440C | BD Biosciences | Cat# 748291 |
| Anti-mouse Tim-3 (BV605); clone RMT3–23 | Biolegend | Cat# 119721 |
| Anti-mouse TNFα (BV650); clone MP6-XT22 | Biolegend | Cat# 506333 |
| Anti-mouse XCR1 (BV650); clone ZET | Biolegend | Cat# 148220 |
| Anti-mouse IFNα/β receptor-1; clone MAR1–5A3 | BioXCell | Cat# BP0241 |
| Anti-mouse PD-L1; clone 10F.9G2 | BioXCell | Cat# BP0101 |
| TotalSeq-C0301 anti-mouse Hashtag 1; clones M1/42, 30-F11 | Biolegend | Cat# 155861 |
| TotalSeq-C0302 anti-mouse Hashtag 2; clones M1/42, 30-F11 | Biolegend | Cat# 155863 |
| TotalSeq-C0303 anti-mouse Hashtag 3; clones M1/42, 30-F11 | Biolegend | Cat# 155865 |
| TotalSeq-C0304 anti-mouse Hashtag 4; clones M1/42, 30-F11 | Biolegend | Cat# 155867 |
| TotalSeq-C0305 anti-mouse Hashtag 5; clones M1/42, 30-F11 | Biolegend | Cat# 155869 |
| TotalSeq-C0306 anti-mouse Hashtag 6; clones M1/42, 30-F11 | Biolegend | Cat# 155871 |
| TotalSeq-C0307 anti-mouse Hashtag 7; clones M1/42, 30-F11 | Biolegend | Cat# 155873 |
| TotalSeq-C0308 anti-mouse Hashtag 8; clones M1/42, 30-F11 | Biolegend | Cat# 155875 |
| TotalSeq-C0309 anti-mouse Hashtag 9; clones M1/42, 30-F11 | Biolegend | Cat# 155877 |
| TotalSeq-C0310 anti-mouse Hashtag 10; clones M1/42, 30-F11 | Biolegend | Cat# 155879 |
| Chemicals, peptides, and recombinant proteins | ||
| Dasatinib | Selleckchem | S1021 |
| Isoflurane, USP | Baxter Healthcare Corp. | NDC 10019-360-60 |
| Paraformaldehyde (PFA, 16%) | Electron Microscopy Sciences | 15710 |
| Tween-20 | Sigma | P-7949 |
| Heparin | Fresenius Kabi | NDC 63323-540-05 |
| Dimethylsulfoxide (DMSO) | Sigma-Aldrich | 276855–100mL |
| Reps1 SNP vaccine | Vaccitech North America | N/A |
| Reps1 SNP vaccine labelled with AF647 | Vaccitech North America | N/A |
| Trp1 SNP vaccine | Vaccitech North America | N/A |
| ABTS (2,2’-Azino-bis(3-ethylbenzothiazoline-6-sulfonic acid)) | Sigma | A3219 |
| Murine IL-12 ABTS ELISA Kit | Peprotech | 900-K97 |
| Reps1 Tetramer (H-2Db, AQLANDVVL) | Gift from J. Finnigan | N/A |
| Trp1 Tetramer (H-2Db, TAPDNLGYM) | Gift from J. Finnigan | N/A |
| Critical commercial assays | ||
| Mouse IFN Alpha All Subtype ELISA Kit, High Sensitivity | PBL Assay Science | Cat# 42115–1 |
| eBioscience™ Foxp3 / Transcription Factor Staining Set | Invitrogen | Cat# 00-5523-00 |
| LIVE/DEAD™ Fixable Blue Dead Cell Stain Kit | ThermoFisher Scientific | Cat# L34962 |
| ArC™ Amine Reactive Compensation Bead Kit | ThermoFisher Scientific | Cat# A10346 |
| BD Horizon Brilliant Stain Buffer | BD Biosciences | 566385 |
| Streptavidin PE (SaPE) | BD Biosciences | S866 |
| Trypsin-EDTA (0.25%) | Gibco, Life Tech | 25200–056 |
| ViaStain AOPI Staining Solution | Nexcelom Bioscience | CS2–0106 |
| Milliplex MAP mouse cytokine/chemokine Magnetic Kit | Millipore Sigma | MCYTMAG-70K-PX32 |
| Phosphate buffered saline (PBS) | Gibco | 10010–023 |
| RPMI 1640 | Cytiva, HyClone Labs | SH30027.02 |
| FBS | Gibco | 10438–026 |
| Penicillin/Streptomycin/Glutamine (100X) | Gibco, Life Tech | 10378–016 |
| Non-essential Amino Acids (100X) | Cytiva, HyClone Labs | SH30238.01 |
| Sodium Pyruvate (100mM) | Cytiva, HyClone Labs | SH30239.01 |
| Collagenase D | Roche | 11088882001 |
| DNase I | Roche | 04536282001 |
| ACK (Ammonium-Chloride-Potassium) lysing buffer | Quality Biological | 118-156-101 |
| Chromium Single Cell 50 Reagent Kit | 10X Genomics | |
| Dynabead MyOne Silane | Thermo Fisher Scientific | Cat#37002D |
| SPRIselect for Size Selection | Beckman Coulter | Cat#B23319 |
| Experimental models: Cell lines | ||
| MC38 Murine colorectal cancer cell line | Genentech, L. Delamarre | N/A |
| Experimental models: Organisms/strains | ||
| Mouse: wild-type C57BL/6J mice | Jackson Labs | 000664 |
| Mouse: B6.SJL-Ptprca Pepcb/BoyJ | Jackson Labs | 002014 |
| Mouse: B6(Cg)-Zbtb46tm1(HBEGF)Mnz/J | Jackson Labs | 019506 |
| Software and algorithms | ||
| Flowjo v10 | Tree Star | N/A |
| GraphPad Prism v8 | GraphPad software | N/A |
| xPONENT software | Luminex | N/A |
| Living Image v4.5 | PerkinElmer | N/A |
| R, v4.1.2 | R Project | https://www.r-project.org/ |
| Cellranger v6.0.0 | 10X Genomics | https://support.10xgenomics.com |
| Seurat v4.1.0 | Seurat | https://cran.r-project.org/web/packages/Seurat/index.html |
| Monocle 3 v1.0.0 | Monocle | https://github.com/cole-trapnell-lab/monocle3/releases/tag/1.0.0 |
| Slingshot v2.2.0 | Slingshot | https://bioconductor.org/packages/release/bioc/html/slingshot.html |
| DoubletFinder v 2.0.3 | DoubletFinder | https://github.com/chris-mcginnis-ucsf/DoubletFinder |
| pheatmap v1.0.12 | Pheatmap | https://cran.r-project.org/web/packages/pheatmap/index.html |
| dittoSeq v1.6.0 | DittoSeq | https://bioconductor.org/packages/release/bioc/html/dittoSeq.html |
| biomaRt v2.50.3 | BiomaRt | https://bioconductor.org/packages/release/bioc/html/biomaRt.html |
| EnhancedVolcano v1.12.0 | Enhanced Volcano | https://bioconductor.org/packages/release/bioc/html/EnhancedVolcano.html |
| MetaScape v20220101 | MetaScape | https://metascape.org/gp/index.html#/main/ |
| QIAGEN IPA vDec. 2021 | QIAGEN | https://digitalinsights.qiagen.com/products-overview/discovery-insights-portfolio/analysis-and-visualization/qiagen-ipa/ |
| Deposited data | ||
| scRNA-seq | Gene Expression Omnibus | GSE214741 |