REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Tim3 BV421	BD	Cat# 565562; RRID: AB_2744369
HLA-DR Pacific Blue	BioLegend	Cat# 307633; RRID: AB_1595444
CD8 BV510	BioLegend	Cat# 301048; RRID: AB_2561942
CD39 BV605	BioLegend	Cat# 328236; RRID: AB_2750430
CD69 BV650	BioLegend	Cat# 310934; RRID: AB_2563158
CD45RA BV711	BioLegend	Cat# 304138; RRID: AB_2563815
PD-1 BV786	BioLegend	Cat# 329930; RRID: AB_2563443
Tcf-1 (rabbit), unconjugated	Cell Signaling Technologies	Cat# 2203S
CD45 Spark Blue 550	BioLegend	Cat# 368549; RRID: AB_2820024
CD38 BB700	BD	Cat# 566445; RRID: AB_2744375
TIGIT PerCP/eFluor710	Invitrogen	Cat# 46-9500-41; RRID: AB_10853679
Granzyme B Biotin	Mabtech	Cat# 3485-6-250; RRID: AB_907253
KI-67 BB790	BD	Custom
TOX PE	Invitrogen	Cat# 12-6502-82; RRID: AB_10855034
CTLA-4 PE/Dazzle594	BioLegend	Cat# 349922; RRID: AB_2566198
FOXP3 PE/Cy5	Invitrogen	Cat# 15-4776-42; RRID: AB_1963595
CD28 PE/Cy7	BioLegend	Cat# 302926; RRID: AB_10644005
CD127 APC	BioLegend	Cat# 351316; RRID: AB_10900804
CCR7 Spark NIR 685	BioLegend	Cat# 353258; RRID: AB_2860926
CD3 R718	BD	Cat# 751978
CD4 APC/Fire810	BioLegend	Cat# 344662; RRID: AB_2860884
anti-rabbit AF488	Thermo Fisher	Cat# A-11008; RRID: AB_143165
Streptavidin BB755	BD	Custom
TotalSeq-C0251 anti-human Hashtag 1 Antibody	BioLegend	Cat# 394661; RRID: AB_2801031
TotalSeq-C0252 anti-human Hashtag 2 Antibody	BioLegend	Cat# 394663; RRID: AB_2801032
Pan-Cytokeratin Alexa Fluor 594 (for immunofluoresence)	BioLegend	Cat# 628606; RRID: AB_2566437
Chemicals, peptides, and recombinant proteins
CEFX Ultra SuperStim Pool	JPT	Cat# PM-CEFX-2
Zombie NIR	Biolegend	Cat# 423106
DAPI	Thermo Fisher	Cat# 62248
Critical commercial assays
IFNγ Secretion Assay – Detection Kits, human	Miltenyi	Cat# 130-054-202
TCR profiling (of circulating CD8+ T cells)	Adaptive Biotechnologies	Human TCRB immunoSEQ
Visium Spatial Gene Expression Reagent Kit	10X Genomics	Cat# 1000184
Library Construction Kit	10X Genomics	Cat# 1000190
Deposited data
scRNA-seq data	This paper	GEO: GSE179373
Spatial transcriptomics data	This paper	GEO: GSE179572
Spatial TCR-sequencing reads	This paper	BioProject: PRJNA742564
VDJdb TCR sequences	VDJdb	https://vdjdb.cdr3.net/
Processed scRNA-seq and CellphoneDB analysis	This paper	Mendeley data: https://doi.org/10.17632/tdggxgygrw.1
Oligonucleotides
Dual Index Kit TT Set A	10X Genomics	Cat# 1000215
Software and Algorithms
Cell Ranger, version 4	10X Genomics	https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger
Space Ranger, version 1	10X Genomics	https://support.10xgenomics.com/spatial-gene-expression/software/pipelines/latest/what-is-space-ranger
Loupe Browser, version 5	10X Genomics	https://support.10xgenomics.com/single-cell-gene-expression/software/visualization/latest/what-is-loupe-cell-browser
MiXCR	Bolotin et al., Nature Methods 2015	https://github.com/milaboratory/mixcr/
Seurat	Stuart et al., Cell 2019	CRAN
Spatial TCR sequencing analysis	This paper	https://github.com/whhudson/spatialTCR (https://doi.org/10.5281/zenodo.6368907)
FlowJo	BD Biosciences	https://www.flowjo.com/