RT Journal Article
SR Electronic
T1 Reconstructing SARS-CoV-2 response signaling and regulatory networks
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.06.01.127589
DO 10.1101/2020.06.01.127589
A1 Jun Ding
A1 Jose Lugo-Martinez
A1 Ye Yuan
A1 Darrell N. Kotton
A1 Ziv Bar-Joseph
YR 2020
UL http://biorxiv.org/content/early/2020/10/13/2020.06.01.127589.abstract
AB Several molecular datasets have been recently compiled to characterize the activity of SARS-CoV-2 within human cells. Here we extend computational methods to integrate several different types of sequence, functional and interaction data to reconstruct networks and pathways activated by the virus in host cells. We identify the key proteins in these networks and further intersect them with genes differentially expressed at conditions that are known to impact viral activity. Several of the top ranked genes do not directly interact with virus proteins though some were shown to impact other coronaviruses highlighting the importance of large-scale data integration for understanding virus and host activity.Software and interactive visualization: https://github.com/phoenixding/sdremscCompeting Interest StatementThe authors have declared no competing interest.