REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
rabbit polyclonal anti-SARS-CoV-2 nucleoprotein	GeneTex, Inc.	Cat#GTX135357; RRID: AB_2868464
mouse monoclonal anti-dsRNA antibody J2	Scicons	Cat#10010500 RRID: AB_2651015
goat polyclonal anti-rabbit IgG conjugated to AF594	ThermoFisher Scientific, Inc.	Cat#A-11012 RRID: AB_141359
goat polyclonal anti-mouse IgG conjugated to AF488	ThermoFisher Scientific, Inc.	Cat#A-11001; RRID: AB_2534069
Bacterial and Virus Strains
SARS-CoV-2 (strain: WA1/2020) GenBank: MT246667.1	BEI Resources	Cat#NR-52281
HCoV-NL63 GenBank: AY567487	BEI Resources	Cat#NR-470
HCoV-OC43	ZeptoMetrix	Cat#0810024CF
HCoV-229E	Laboratory of Volker Thiel	N/A
Endura electrocompetent cells	Lucigen	Cat#60242-2
Chemicals, Peptides, and Recombinant Proteins
TRIzol™ Reagent	ThermoFisher Scientific	Cat#15596026; CAS: 108-95-2, 593-84-0, 1762-95-4
DharmaFECT-4	ThermoFisher Scientific	Cat#NC1411281
Hoechst 33342 solution	ThermoFisher Scientific, Inc.	Cat#62249; CAS: 23491-52-3
BsmBI Restriction Enzyme	New England Biolabs	Cat#R0739L
Q5 High-Fidelity 2X Master Mix	New England Biolabs	Cat#M0491L
T4 DNA Ligase	New England Biolabs	Cat#M0202M
Critical Commercial Assays
Monarch Genomic DNA Purification kit	New England Biolabs	Cat#T3010L
Plasmid Plus Maxi Kit	QIAGEN	Cat#12963
QIAquick Gel Extraction Kit	QIAGEN	Cat#28706
Deposited Data
Raw and analyzed CRISPR screening data	This study	GEO: GSE162039
Raw and analyzed CRISPR screening data	This study	Mendeley: https://doi.org/10.17632/9rc2n4bkmv.1
Experimental Models: Cell Lines
Human: Lenti-X™ 293T (embryonic kidney epithelial)	Takara Bio Inc.	Cat#632180; RRID: CVCL_4401
Human: Huh-7.5 (hepatocyte)	Laboratory of Charles M Rice	RRID: CVCL_7927
Human: A549 (lung epithelial)	ATCC	Cat#CCL-185; RRID: CVCL_0023
Oligonucleotides
Human SARS-CoV-2 host protein interactome CRISPR library (oligo pool; 3,944 sgRNAs in total)	This study; Agilent HiFi Oligonucleotide Synthesis Platform	Addgene: Cat.#163959; RRID: Addgene_163959
All oligonucleotides used for screen deconvolution are available in the supplementary material
Recombinant DNA
Plasmid: LentiCas9-Blast	Sanjana et al., 2014	Addgene: Cat.#52962; RRID: Addgene_52962
Plasmid: LentiGuide-PuroV2 (variant of LentiGuide-Puro)	Sanjana et al., 2014	Addgene: Cat#52963; RRID: Addgene_52963
Plasmid: HIV-1 Gag-Pol	This study	N/A
Plasmid: VSV-G	This study	N/A
Plasmid: pSCRPSY_TMPRSS2-2A-NeoR_ACE2 (modified SCRPSY vector, GenBank: KT368137.1)	This study	N/A
Software and Algorithms
Vienna Bioactivity CRISPR score	https://www.vbc-score.org/
Broad Institute sgRNA Designer	https://portals.broadinstitute.org/gpp/public/analysis-tools/sgrna-design
Prism	GraphPad Software, Inc.	https://www.graphpad.com/scientific-software/prism/
Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK)	Li et al., 2014	https://sourceforge.net/p/mageck/wiki/Home/
Cytoscape	Shannon et al., 2003	https://cytoscape.org/
Seurat	Stuart et al., 2019	https://satijalab.org/seurat/
Other
15-cm LB-Carbenicillin plates	Teknova	Cat#L5010
Gene Pulser/Micropulser Cuvettes	Bio-Rad	Cat#1652083
Revolve inverted microscope	ECHO	https://discover-echo.com/revolve
ImageXpress Micro XLS	Molecular Devices	https://www.moleculardevices.com