KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rat monoclonal anti-CD45 (clone: 30-F11) | BD Biosciences | Cat#561487; RRID: AB_10697046 |
| Rat monoclonal anti-CD11b (clone: M1/70) | BD Biosciences | Cat#564443; RRID: AB_2738811 |
| Hamster monoclonal anti-CD3ϵ (clone: 145-2C11) | eBioscience | Cat#53-0031-82; RRID: AB_469889 |
| Rat monoclonal anti-CD4 (clone: RM4-5) | BioLegend | Cat#100548; RRID: AB_2563054 |
| Rat monoclonal anti-CD8α (clone: 53-6.7) | BD Biosciences | Cat#562283; RRID: AB_11152075 |
| Hamster monoclonal anti-CD49b (clone: HMα2) | BioLegend | Cat#103518; RRID: AB_2566103 |
| Rat monoclonal anti-F4/80 (clone: BM8) | BioLegend | Cat#123110; RRID: AB_893486 |
| Rat monoclonal anti-Ly6G (clone: 1A8) | BioLegend | Cat#127643; RRID: AB_2565971 |
| Rat monoclonal anti-Ly6C (clone: HK1.4) | BioLegend | Cat#128026; RRID: AB_10640120 |
| Rat monoclonal anti-CD45R/B220 (clone: RA3-6B2) | BioLegend | Cat#103236; RRID: AB_893354 |
| Hamster monoclonal anti-CD11c (clone: N418) | BioLegend | Cat#117312; RRID: AB_389328 |
| Rat monoclonal anti-CD16/32 (clone: 93) | BioLegend | Cat#101320; RRID: AB_1574975 |
| Rat monoclonal IgG2b, κ isotype (clone: A95-1) | BD Biosciences | Cat#560784; RRID: AB_1937321 |
| Biological Samples | ||
| Formalin-fixed, paraffin-embedded, GL261 glioma-bearing mouse brain tissue sections (36-days post tumor engraftment) | This paper | N/A |
| Deposited Data | ||
| Flow Cytometry Standard (FCS) files | This paper | https://www.synapse.org/#!Synapse:syn21038618 |
| Combined CSV table | This paper | https://www.synapse.org/#!Synapse:syn22314373 |
| SYLARAS Dashboards | This paper | https://www.synapse.org/#!Synapse:syn22249852 |
| Antigen expression by different mouse immune cell subsets identified via prior knowledge and unsupervised clustering algorithms | This paper | https://www.synapse.org/#!Synapse:syn22263977 |
| t-CyCIF data (mouse lymph node, GL261 glioma-36dpi) | This paper | https://www.synapse.org/#!Synapse:syn22249837 |
| Experimental Models: Cell Lines | ||
| Mouse: GL261 glioma cells | Developmental Therapeutics Program (DTP), Division of Cancer Treatment and Diagnosis (DCTD) Tumor Repository, National Cancer Institute; https://dtp.cancer.gov/organization/btb/tumor_repositories.htm | RRID: CVCL_Y003 |
| Experimental Models: Organisms/Strains | ||
| Mouse: C57BL/6J | The Jackson Laboratory | Stock No: 000664 |
| Software and Algorithms | ||
| SYLARAS software | This paper | https://github.com/gjbaker/sylaras |
| FACSDiva (version 8.0) | https://www.bdbiosciences.com/en-us/instruments/research-instruments/research-software/flow-cytometry-acquisition/facsdiva-software | |
| FlowJo (version 10.3.0) | https://www.flowjo.com/ | |
| Python (version 3.6.1) | https://www.python.org/ | |
| R (version 3.5.3) | https://www.r-project.org/ | |
| PhenoGraph (version 1.5.2) | Levine et al., 2015 | https://github.com/jacoblevine/PhenoGraph |
| FlowSOM (version 1.14.1) | Van Gassen et al., 2015 | https://bioconductor.org/packages/release/bioc/html/FlowSOM.html |
| Other | ||
| SYLARAS website | This paper | https://www.sylaras.org/ |