Consensus transcriptional regulatory networks of coronavirus-infected human cells.

Scientific Data
Scott A OchsnerNeil J McKenna

Abstract

Establishing consensus around the transcriptional interface between coronavirus (CoV) infection and human cellular signaling pathways can catalyze the development of novel anti-CoV therapeutics. Here, we used publicly archived transcriptomic datasets to compute consensus regulatory signatures, or consensomes, that rank human genes based on their rates of differential expression in MERS-CoV (MERS), SARS-CoV-1 (SARS1) and SARS-CoV-2 (SARS2)-infected cells. Validating the CoV consensomes, we show that high confidence transcriptional targets (HCTs) of MERS, SARS1 and SARS2 infection intersect with HCTs of signaling pathway nodes with known roles in CoV infection. Among a series of novel use cases, we gather evidence for hypotheses that SARS2 infection efficiently represses E2F family HCTs encoding key drivers of DNA replication and the cell cycle; that progesterone receptor signaling antagonizes SARS2-induced inflammatory signaling in the airway epithelium; and that SARS2 HCTs are enriched for genes involved in epithelial to mesenchymal transition. The CoV infection consensomes and HCT intersection analyses are freely accessible through the Signaling Pathways Project knowledgebase, and as Cytoscape-style networks in the Network Dat...Continue Reading

References

Dec 15, 1987·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·C R WobbeJ Hurwitz
Mar 6, 1998·Molecular and Cellular Biology·I HavivY Shaul
Oct 6, 1998·Annual Review of Biochemistry·G R StarkR D Schreiber
Oct 10, 1998·Journal of Virology·A García-SastreJ E Durbin
Oct 6, 2000·Genes & Development·J W Harbour, D C Dean
Dec 12, 2001·Molecular Biology of the Cell·P KaldisM J Solomon
Feb 5, 2002·Annual Review of Physiology·JoAnne S RichardsLawrence L Espey
Dec 3, 2002·Nature Reviews. Cancer·Marie Classon, Ed Harlow
Jan 14, 2003·Annual Review of Immunology·Kiyoshi TakedaShizuo Akira
Mar 20, 2004·Emerging Infectious Diseases·Lisa E HensleyThomas W Geisbert
Aug 4, 2004·Seminars in Cancer Biology·S Diane Hayward
Nov 19, 2005·Journal of Cellular Biochemistry·Martha J Grossel, Philip W Hinds
Apr 19, 2006·Cancer Research·Stephan Gasser, David H Raulet
Aug 16, 2006·Oncogene·L-J KongJ R Nevins
Nov 15, 2007·Antioxidants & Redox Signaling·Fei GaoTim D Oury
Dec 1, 2007·Carcinogenesis·Luis R Borlado, Juan Méndez
Jan 21, 2009·Cell Research·Jian XuRik Derynck
May 14, 2009·The Journal of Clinical Investigation·Ariane ChapgierJean-Laurent Casanova
Apr 22, 2010·JAMA : the Journal of the American Medical Association·Alicia M SistonUNKNOWN Pandemic H1N1 Influenza in Pregnancy Working Group
Sep 3, 2010·Journal of Cell Science·An Vanden BoschGeert Carmeliet
Feb 2, 2011·The American Journal of Pathology·Noritoshi KatoKenji Kadomatsu
Jun 2, 2011·The Journal of Biological Chemistry·Elizabeth J HennessyLuke A J O'Neill
Jul 2, 2011·Journal of the American Society of Nephrology : JASN·Christiane Rüster, Gunter Wolf
Feb 23, 2012·Proceedings of the National Academy of Sciences of the United States of America·M Kasim DirilPhilipp Kaldis
May 10, 2013·Journal of Virology·Kei TakahashiYoshihiro Kawaoka
Aug 13, 2013·Infectious Diseases in Obstetrics and Gynecology·Elisabeth SappenfieldAthena P Kourtis
Nov 26, 2013·Biochemical and Biophysical Research Communications·Wakako Kobayashi, Masayuki Ozawa

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Citations

Jan 26, 2021·Journal of Biomolecular Structure & Dynamics·Ahmed A IsholaSubhash Chandra
May 27, 2021·JHEP Reports : Innovation in Hepatology·Beatrice Bissig-ChoisatKarl-Dimiter Bissig
May 26, 2021·NPJ Systems Biology and Applications·Marisol Salgado-AlbarránErnesto Soto-Reyes
May 18, 2021·Frontiers in Molecular Biosciences·Michael J O'Brien, Athar Ansari

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