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. Author manuscript; available in PMC: 2024 Jun 13.
Published in final edited form as: Immunity. 2023 Jun 13;56(6):1303–1319.e5. doi: 10.1016/j.immuni.2023.05.005
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
BUV737 CD8a BD Cat#612759; RRID: AB_2870090
BV421 CD8a BioLegend Cat#100738; RRID: AB_11204079
BV605 CD44 BD Cat#563058; RRID: AB_2737979
BUV395 Thy1.1 BD Cat#563804; RRID: AB_2632398
BUV496 Thy1.2 BD Cat#741046; RRID: AB_2870661
PE CD127 BioLegend Cat#135010; RRID: AB_1937251
PE-Cy7 KLRG1 Invitrogen Cat#25-5893-82; RRID: AB_1518768
PerCP-Cy5.5 CX3CR1 BioLegend Cat#149010; RRID: AB_2564494
BUV395 CXCR3 BD Cat#745689; RRID AB_2743174
BV711 CD49a BD Cat#564863: RRID: AB_2738987
BUV737 CD69 BD Cat#564684; RRID: AB_2738891
BUV395 CD103 BD Cat#740238; RRID: AB_2739985
BV480 Va2 BD Cat#746615; RRID: AB_2743895
R718 TCRb BD Cat#567299
PE Tbet BioLegend Cat#644810; RRID: AB_2200542
PE-Cy7 Eomes Invitrogen Cat#25-4875-82; RRID: AB_2573454
AF647 Tcf1 Cell Signaling Technology Cat#6709S
ARID1A Abcam Cat#ab182561
BV421 IFNg BioLegend Cat#505830; RRID: AB_2563105
PE-Cy7 TNF BioLegend Cat#506324; RRID: AB_2256076
APC CCL3 R&D Systems Cat#IC450A
PE IL-2 BioLegend Cat#503808; RRID: AB_315302
PE-Cy7 Granzyme B Biolegend Cat#372214; RRID: AB_2728381
PE Granzyme A ThermoFisher Scientific Cat#17-5831-82; RRID: AB_2573228
eBioscience Fixable Viability Dye eFluor 780 ThermoFisher Scientific Cat#65-0865-14
CellTrace Violet ThermoFisher Scientific Cat#C34557
DAPI BD Cat#564907
H3K27ac Abcam Cat#4729
H3K27me3 Cell Signaling Technology Cat#9733S
ARID1A Cell Signaling Technology Cat#12354S
BATF Brookwood Biomed Cat#4003
Tbet Cell Signaling Technology Cat#97135S
ETS1 Cell Signaling Technology Cat#14069
Purified NA/LE Hamster anti-Mouse CD3e BD Cat#567114
Purified Hamster anti-Mouse CD28 BD Cat#553295; RRID: AB_394764
Bacterial and virus strains
LCMV Armstrong Kaech and Ahmed, 2001 NA
Listeria monocytogenes GP33-41 Ananda Goldrath NA
Chemicals, peptides, and recombinant proteins
GP33-41 peptide GenScript Cat#RP20091
Recombinant Murine IL-12p70 R&D Systems Cat#419-ML-010
Recombinant Murine IL-2 PEPROTECH Cat# 212-12
Recombinant Murine IL-18 R&D Systems Cat#9139-IL-010
ACBI1 opnMe NA
BRM014 MedChemExpress Cat#HY-119374
Brefeldin A BioLegend Cat#420601
ACK Lysing Buffer VWR Cat#10128-804
eBioscience Foxp3/Transcription factor staining buffer set ThermoFisher Scientific Cat#00-5523-00
eBioscience 10X Permeabilization buffer ThermoFisher Scientific Cat#00-8333-56
Cytofix/Cytoperm BD Cat#554714
RPMI 1640 Medium GIBCO Cat#21875034
Fetal bovine serum Sigma-Aldrich Cat#F0804
L-Glutamine GIBCO Cat#25030081
2-Mercaptoethanol GIBCO Cat#21985023
Penicillin-streptomycin Invitrogen Cat#15140148
Collegenase D Sigma-Aldrich Cat#11088882001
DnaseI Sigma-Aldrich Cat#DN25-5G
HBSS GIBCO Cat#14025092
Dithioerythritol EMD Millipore Cat#233152
1M HEPES ThermoFisher Scientific Cat#15630080
Alt-R S.p. Cas9 Nuclease V3 IDT Cat#1081059
pA/G-MNase Epicypher Cat#14-1048
Critical commercial assays
P3 Primary Cell 4D X Kit S Lonza V4XP-3032
Deposited data
Raw and analyzed data This paper GEO: GSE228381
Experimental models: Organisms/strains
Mouse: granzyme-B-Cre The Jackson Laboratory JAX: 003734
Mouse: C57BL/6J The Jackson Laboratory JAX: 000664
Mouse: Tg(TcrLCMV)327Sdz (P14) Pircher et al., 1989 MGI: 2665105
Mouse: Arid1atm1.1Mag Chandler et al., 2015 MGI: 5708705
Mouse: Tbx21 KO Szabo et al., 2002 JAX: 004648
Oligonucleotides
Recombinant DNA
MIGR1-Tbet Joshi et al., 2007 NA
Software and algorithms
STAR Dobin et al, 2013 https://github.com/alexdobin/STAR
bwa-mem2 Vasimuddin et al., 2019 https://github.com/bwa-mem2/bwa-mem2
Homer Heinz et al., 2010 http://homer.ucsd.edu/homer/
DESeq2 Love et al., 2014 https://bioconductor.org/packages/release/bioc/html/DESeq2.html
ggplot2 https://cran.r-proiect.org/web/packages/ggplot2/index.html
deepTools Ramírez et al., 2016 https://github.com/deeptools/deepTools/
fgsea https://github.com/ctlab/fgsea