REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
anti-CD14	BioLegend	Cat# 367123; RRID:AB_2716228
anti-CD19	BioLegend	Cat# 363020; RRID:AB_2564229
anti-CD33	BioLegend	Cat# 366609; RRID:AB_2566402
anti-γδTCR	BioLegend	Cat# 331220; RRID:AB_2564275
anti-CD3	BioLegend	Cat# 300406; RRID:AB_314060
anti-CD8	BD Biosciences	Cat# 563795; RRID:AB_2722501
anti-CD4	BioLegend	Cat# 300553; RRID:AB_2564381
anti-CCR7	BioLegend	Cat# 353236; RRID:AB_2563641
anti-CD45RA	BioLegend	Cat# 304138; RRID:AB_2563815
anti-CD28	BD Biosciences	Cat# 555726; RRID:AB_396069
anti-CD49d	BD Biosciences	Cat# 555501; RRID:AB_2130052
anti-CXCR3	BD Biosciences	Cat# 557184; RRID:AB_396595
anti-CXCR5	BD Biosciences	Cat# 552032; RRID:AB_394324
anti-IL2	Biolegend	Cat# 500332; RRID:AB_2563877
anti-TNFa	Creative Diagnostics	Cat# CABT-WN1553; RRID:AB_2460295
anti-IFNg	BD Biosciences	Cat# 340452; RRID:AB_400428
anti-GranZB	Biolegend	Cat# 372211; RRID:AB_2728378
anti-CD69	Biolegend	Cat# 310922; RRID:AB_493775
anti-CD154	Biolegend	Cat# 310823; RRID:AB_10933251
anti-CD137	Biolegend	Cat# 309833; RRID:AB_2734279
anti-CD38	Thermo Fisher Scientific	Cat# 15-0389-41; RRID:AB_1834382
anti-Ki-67	BD Biosciences	Cat# 563756; RRID:AB_2732007
Biological samples
PBMC samples from BNT162b2 vaccine donors	Stanford Good Clinical Practice	IRB 8629
PBMC samples from COVID-19 patient	Stanford Occupational Health	IRB 55689 and IRB 55619
PBMC samples from COVID-19 recovered BNT162b2 vaccinated donors	Stanford Good Clinical Practice and Stanford Occupational Health	IRB 8629, IRB 55689, and IRB 55619
Chemicals, peptides, and recombinant proteins
Human TruStain FcX	BioLegend	#422302
Benzonase nuclease	Millipore Sigma	#71206
MHC-I monomer	NIH tetramer facility core	HLA-A∗02:01 and HLA-B∗40:01
MHC-II monomer	NIH tetramer facility core	HLA-DRB1∗15:01
Peptides (synthesized to 95% purity)	Elim Biopharm	Sequences shown in Table S1
Streptavidin PE-Cyanine7 Conjugate	Thermo Fisher Scientific	# 25-4317-82
Streptavidin PE Conjugate	Thermo Fisher Scientific	#12-4317-87
Streptavidin eFluor™ 450 Conjugate	Thermo Fisher Scientific	#48-4317-82
Streptavidin Alexa Fluor™ 647 conjugate	Thermo Fisher Scientific	#S21374
Streptavidin Brilliant Violet 711 conjugate	BioLegend	#405241
Streptavidin Brilliant Violet 785 conjugate	BioLegend	#405249
Streptavidin PE/Dazzle 594 conjugate	BioLegend	#405247
Cytofix/cytoperm buffer	BD Biosciences	#554714
Perm/wash buffer	BD Biosciences	#554723
Brefeldin-A solution	Thermo Fisher Scientific	#00-4506-51
anti-FITC microbeads	Miltenyi Biotec	#130-048-701
Live/dead fixable aqua dead cell stain kit	Invitrogen	#L34957
Software and algorithms
GraphPad Prism 8	GraphPad software	https://www.graphpad.com/scientificsoftware/prism/
UMAP code package	R studio	N/A
FlowJo 10	BD	https://www.flowjo.com/
IEDB	IEDB website	http://tools.iedb.org/
SYFPEITHI	SYFPEITHI website	http://www.syfpeithi.de/
MARIA	MARIA Stanford	https://maria.stanford.edu/about.php
Other
RPMI 1640 media	Thermo Fisher Scientific	#11875085
Fetal Bovine Serum	R&D Systems	S11150
FACS tube with 70-μm mesh cap	ThermoFisher Scientific	#08-771-23
30K Amicon tubes	Millipore	#UFC903024
70μm cell strainer	Corning	07-201-431
anti-FITC microbeads	Miltenyi Biotec	130-048-701
96-well plates	Corning	#3916