REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Sars-CoV-2 Nucleocapsid	GeneTex	GTX135357;RRID: AB_2868464
HNF4a	Life Technologies	MA1-199;RRID: AB_2633309
dsRNA	SCICONS English & Scientific Consulting	J2;RRID: AB_2651015
KRT17	Abcam	ab53707;RRID: AB_869865
Bacterial and virus strains
SARS-CoV-2 (USA_WA1/2020)	BEI	NR-52281
Chemicals, peptides, and recombinant proteins
Tocilizumab	Selleck	A2012
Critical commercial assays
RNeasy Micro Kit	Qiagen	74004
Chromium Next GEM Automated Single Cell 3′ Library and Gel Bead Kit v3.1	10X Genomics	1000147
Custom Luminex Assay	R&D Systems	NA
Deposited data
Raw and analyzed sequencing data	This study	GEO: GSE210061
Experimental models: Cell lines
Vero E6	ATCC	CRL-1586
H1 (WA01) hPSCs	WiCell	NA
Allen hPSCS	the Allen Institute	NA
1016 (DiPS 1016 SevA) hPSCs	Harvard Stem Cell Institute iPS Core	NA
Oligonucleotides
Primers for RPLP0, SARS-CoV-2, Albumin, HNF4a, IL-6, MCP-1 See Table S3	N/A	N/A
Software and algorithms
Code used to create Figures 2A and S3	This study	Code to create Figures 2A and S3.zip