REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
SARS-CoV-2 nucleocapsid (N) antibody (clone 1C7C7)	Center for Therapeutic Antibody Discovery at the Icahn School of Medicine at Mount Sinai	N/A
Mouse anti-2A (clone 3H4)	Millipore	Cat#MABS2005
Rabbit anti-GAPDH (clone 14C10)	Cell Signaling	Cat#2118S; RRID: AB_561053
IRDye 680RD donkey anti-rabbit	LI-COR	Cat#926-68073; RRID: AB_10954442
IRDye 800CW donkey anti-mouse	LI-COR	Cat#926-32212; RRID: AB_621847
Goat anti-human IgG Alexa Flour 568	Thermo Fisher Scientific	Cat#A-21090; RRID: AB_2535746
Goat anti-ACE2	R&D Systems	Cat#AF933; RRID: AB_355722
Anti-Goat APC	R&D Systems	Cat#F0108; RRID: AB_573124
Rabbit anti-EEA1	Thermo Fisher Scientific	Cat#MA5-14794; RRID: AB_10985824
Goat anti-Mouse IgG Alexa 488	Jackson Immuno Research	Cat#115-545-003; RRID: AB_2338840
Goat anti-Rabbit IgG Alexa 594	Jackson Immuno Research	Cat#711-585-152; RRID: AB_2340621
Rabbit anti-RAB7A	NovusBio	Cat#NBP1-87174; RRID: AB_11004418
Rabbit anti-CCDC22	Proteintech	Cat#16636-1-AP; RRID: AB_2072065
Rabbit anti-ATP6V1A	Proteintech	Cat#17115-1-AP; RRID: AB_2290195
Rabbit anti-ACE2	Thermo Fisher Scientific	Cat#MA5-32307; RRID: AB_2809589
Mouse anti-beta tubulin	Thermo Fisher Scientific	Cat#32-2600; RRID: AB_2533072
Bacterial and Virus Strains
NEB Stable Cells	New England Biolabs	Cat#C3040I
Chemicals, Peptides, and Recombinant Proteins
Polyethyleneimine	Polysciences	Cat#23966
Taq B polymerase	Enzymatics	CAT#P7250L
Q5 High-Fidelity DNA polymerase	New England Biolabs	Cat#M0491L
PageRuler pre-stained protein ladder	Thermo Fisher Scientific	Cat#26616
Lipofectamine RNAiMAX	Thermo Fisher Scientific	Cat#13778075
Serabelisib	Selleckchem	Cat#S8581
Idelalisib	Selleckchem	Cat#S2226
Buparlisib	Selleckchem	Cat#S2247
PIK-III	Selleckchem	Cat#S7683
Compound 19 (VPS34 inhibitor 1)	Selleckchem	Cat#S8456
SAR405	Selleckchem	Cat#S7682
Autophinib	Selleckchem	Cat#S8596
Odanacatib	Selleckchem	Cat#S1115
SID 26681509	MedChemExpress	Cat#HY-103353
ALLN	Selleckchem	Cat#S7386
Sotrastaurin	Selleckchem	Cat#S2791
Enzastaurin	Selleckchem	Cat#S1055
Tamoxifen	Selleckchem	Cat#S1238
Ilomastat	Selleckchem	Cat#S7157
Doxycycline Hyclate	Selleckchem	Cat#S4163
GSK6853	MedChemExpress	Cat#HY-100220
Olanzapine	Selleckchem	Cat#S2493
Binimetinib (MEK162)	Selleckchem	Cat#S7007
Mirdametinib	Selleckchem	Cat#S1036
Gentamicin	Selleckchem	Cat#S4030
Vorinostat	Selleckchem	Cat#S1047
Belinostat	Selleckchem	Cat#S1085
Panobinostat	Selleckchem	Cat#S1030
Pracinostat	Selleckchem	Cat#S1515
BRD4354	MedChemExpress	Cat#HY-112719
TMP195	Selleckchem	Cat#S8502
Remdesivir	Biovision	Cat#B2997-1000
Amlodipine	Sigma	Cat#A5605
Critical Commercial Assays
Pierce BCA protein assay kit	Thermo Fisher Scientific	Cat#23225
Trypan Blue	Thermo Fisher Scientific	Cat#15250061
LysoTracker DeepRed	Thermo Fisher Scientific	Cat#L12492
Cholesterol-Glo assay	Promega	Cat#J3190
TruSeq Stranded mRNA Library Prep Kit	Illumina	Cat#20040534
10x Genomics 5′ kit (Chromium Single Cell Immune Profiling Solution v1.0)	10x Genomics	Cat #1000014, #1000020, #1000151
LIVE/DEAD Fixable Violet Dead Stain Kit	Thermo Fisher Scientific	Cat#L34864
KAPA SYBR FAST One-step Universal qRT-PCR Kit	Roche	Cat#KK4652
SYBR Fast qPCR (KAPA)	Roche	Cat#KK4602
SuperScript Reverse Transcriptase II	Thermo Fisher Scientific	Cat#18064022
Deposited Data
GeCKOv2 CRISPR Screen in A549-ACE2 infected with SARS-CoV-2	This study	GEO accession: GSE158298
scRNA seq of A549-ACE CRISPR preturbed cells	This study	GEO accession: GSE159519
RNA seq of DMSO or Amplodipine treated A549-ACE2 cells	This study	GEO accession: GSE159522
Experimental Models: Cell Lines
HEK293FT	Thermo Fisher Scientific	Cat#R70007
Caco-2	ATCC	Cat#HTB-37
Vero E6	ATCC	Cat#CRL-1586
Calu-3	ATCC	Cat#HTB-55
A549-ACE2	this study	N/A
Huh7.5-ACE2	Daniloski et al., 2020	N/A
Oligonucleotides
SARS-2 qPCR N mRNA forward: 5′-CTCTTGTAGATCTGTTCTCTAAACGAAC-3′	This study	N/A
SARS-2 qPCR N mRNA reverse: 5′-GGTCCACCAAACGTAATGCG-3′	This study	N/A
Beta Tubulin forward: 5′-GCCTGGACCACAAGTTTGAC-3	This study	N/A
Beta Tubulin reverse: 5′-TGAAATTCTGGGAGCATGAC-3′	This study	N/A
Recombinant DNA
pHR-PGK-hACE	This study	Addgene 161612
pCV-EF1a-hACE2-hygro	Daniloski et al., 2020	Addgene 161758
pCC_01 - lenti-hU6-sgRNA(F+E)-EFS-Cas9-NLS2A-Puro	Legut et al., 2020	Addgene 139086
GeCKOv2 A and B libraries	Sanjana et al., 2014	Addgene 1000000048
pMD2.G	Trono Lab Packaging and Envelope Plasmids	Addgene 12259
psPAX2	Trono Lab Packaging and Envelope Plasmids	Addgene 12260
Software and Algorithms
MaGeCK pipeline was used for the analysis of the CRISPR screen	Chen et al., 2018	N/A
FlowJo v10	BD Biosciences	N/A
GraphPad Prism 8	GraphPad	N/A
Cellranger v3.0.1	10x Genomics	N/A
Seurat R package v3.2	Stuart et al., 2019	N/A
DESeq2	Love et al., 2014	N/A
STRING tool	Szklarczyk et al., 2019	N/A