REAGENT or RESOURCE	SOURCE	IDENTIFIER
Biological samples
Plasma samples from 196 vaccinated individuals	ND Dashdorj, Ulaanbaatar, Mongolia	http://www.onomfoundation.org
Plasma samples from 99 individuals with breakthrough infections	ND Dashdorj, Ulaanbaatar, Mongolia	http://www.onomfoundation.org
Nasopharyngeal swab specimens from 182 individuals with breakthrough infections	ND Dashdorj, Ulaanbaatar, Mongolia	http://www.onomfoundation.org
Chemicals, peptides, and recombinant proteins
Calcium Chloride	Sigma-Aldrich	Cat# C4901
HEPES	Sigma-Aldrich	Cat# H3375
Sodium Chloride	Sigma-Aldrich	Cat# S9888
Sodium Phosphate Dihydrate	Sigma-Aldrich	Cat# 71505
Polybrene Transfection Reagent	Milipore Sigma	Cat# TR-1003-G
BriteLite Plus Reporte Gene Assay System	Perkin Elmer	Cat# 6066761
Dulbecco’s Modification of Eagle’s Medium (DMEM)	Cytiva	Cat# SH30243.01
Fetal Bovine Serum	Sigma-Aldrich	Cat# 12306C
Penicillin/Streptomycin/Glutamine	Life Technologies	Cat# 10367-016
0.05% Trypsin-EDTA	GIBCO	Cat# 25300054
Dulbecco’s Phosphate-Buffered Saline, without Calcium and Magnesium	Cytiva	Cat# SH30028.03
Critical commercial assays
V-PLEX SARS-CoV-2 Panel 11 (ACE2) kit	Meso Scale Discovery	Cat# K15458U-2
V-PLEX Coronavirus Panel 4 (IgG) kit	Meso Scale Discovery	Custom plate
Chemagic Viral DNA/RNA 300 Kit	Perkin-Elmer, Waltham, MA	Cat# CMG-1033-S
SuperScript™ III Platinum™ One-Step qRT-PCR Kit	Invitrogen, Carlsbad	Cat# 11732088
Deposited Data
Demographic data and electrochemiluminescence data	This paper	Mendeley Data:http://dx.doi.org/10.17632/hy3zm69f57.1
Experimental models: Cell lines
HEK293T	Laboratory of William Weis	ATCC CRL-3216
HeLa expressing human ACE2	Laboratory of Dennis Burton (Provided by Laboratory of Peter Kim)	ATCC CRM-CCL-2
Oligonucleotides
N501Y_FWD GTTTTAATTGTTACTTT CCTTTACAATC; final conc. 360 nM	Wang et al., 2021	PMID: 34037430
N501Y_REV CTTTTTAGGTCCACAA ACAGT; final conc. 360 nM	Wang et al., 2021	PMID: 34037430
N501Y_MT_FAM TTTCCAACCCACT TATGGT; final conc. 80 nM; 5' Mod: FAM; 3' Mod: BHQ-1	Wang et al., 2021	PMID: 34037430
del69_70_FWD CATTAAATGGTAGG ACAGGGTTA; final conc. 360 nM	Wang et al., 2021	PMID: 34037430
del69_70_REV ACATTCAACTCAGG ACTTGTT; final conc. 360 nM	Wang et al., 2021	PMID: 34037430
del69_70_MT_HEX TTGGTCCCAGA GATAGCATG; final conc. 80 nM; 5' Mod: HEX; 3' Mod: BHQ-1	Wang et al., 2021	PMID: 34037430
P681H_FWD CAGGTATATGCGCTA GTTATCAG; final conc. 360 nM	Wang et al., 2021	PMID: 34037430
P681H_REV CACCAAGTGACATAG TGTAGG; final conc. 360 nM	Wang et al., 2021	PMID: 34037430
P681H_MT_Cy5 CAGACTAATTCTC ATCGGCG; final conc. 80 nM; 5' Mod: Cy5; 3' Mod: BHQ-2	Wang et al., 2021	PMID: 34037430
Recombinant DNA
Backbone lentiviral plasmid (pHAGE_Luc2_IRES_ZsGreen-W)	Laboratory of Jesse Bloom lab (Provided by Laboratory of Peter Kim); Crawford et al., 2020	BEI Cat# NR-52516
SARS-CoV-2 Wuhan-Hu1 Spike plasmid (pHDM-IDTSpike_fixK)	Laboratory of Jesse Bloom lab (Provided by Laboratory of Peter Kim); Crawford et al., 2020	BEI Cat# NR-51514
Gag-Pol plasmid (pHDM-Hgpm2)	Laboratory of Jesse Bloom lab (Provided by Laboratory of Peter Kim); Crawford et al., 2020	BEI Cat# NR-52517
Tat plasmid (pHDM-Tat1b)	Laboratory of Jesse Bloom lab (Provided by Laboratory of Peter Kim); Crawford et al., 2020	BEI Cat# NR-52518
Rev plasmid (pRC-CMV_Rev1b)	Laboratory of Jesse Bloom lab (Provided by Laboratory of Peter Kim); Crawford et al., 2020	BEI Cat# NR-52519
Software and algorithms
R base packages (for statistical analysis)	R Foundation for Statistical Computing, Vienna, Austria; RStudio Team (2020). RStudio: Integrated Development for R. RStudio, PBC, Boston, MA	https://www.rstudio.com/products/rstudio/download/
ggplot2 package (for graphs)	Wickham, H. (2009) ggplot2: elegant graphics for data analysis. Springer New York.	https://cran.r-project.org/web/packages/ggplot2/index.html
Other
Syringe filter unit, 0.45 μm, polyethersulfone	Milipore Sigma	Cat# SLHP033RS
BD Luer-lock general use syringe	Fisher Scientific	Cat# 22-124-969
96-well white-walled, clear bottom plates (Grenier Bio-One CellStar Microplate)	Fisher Scientific	Cat# 07-000-167
96-well U-bottom clear plates (Corning Costar Assay plate)	Corning	Cat# 3788