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Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.
Gordon DE, Hiatt J, Bouhaddou M, Rezelj VV, Ulferts S, Braberg H, Jureka AS, Obernier K, Guo JZ, Batra J, Kaake RM, Weckstein AR, Owens TW, Gupta M, Pourmal S, Titus EW, Cakir M, Soucheray M, McGregor M, Cakir Z, Jang G, O'Meara MJ, Tummino TA, Zhang Z, Foussard H, Rojc A, Zhou Y, Kuchenov D, Hüttenhain R, Xu J, Eckhardt M, Swaney DL, Fabius JM, Ummadi M, Tutuncuoglu B, Rathore U, Modak M, Haas P, Haas KM, Naing ZZC, Pulido EH, Shi Y, Barrio-Hernandez I, Memon D, Petsalaki E, Dunham A, Marrero MC, Burke D, Koh C, Vallet T, Silvas JA, Azumaya CM, Billesbølle C, Brilot AF, Campbell MG, Diallo A, Dickinson MS, Diwanji D, Herrera N, Hoppe N, Kratochvil HT, Liu Y, Merz GE, Moritz M, Nguyen HC, Nowotny C, Puchades C, Rizo AN, Schulze-Gahmen U, Smith AM, Sun M, Young ID, Zhao J, Asarnow D, Biel J, Bowen A, Braxton JR, Chen J, Chio CM, Chio US, Deshpande I, Doan L, Faust B, Flores S, Jin M, Kim K, Lam VL, Li F, Li J, Li YL, Li Y, Liu X, Lo M, Lopez KE, Melo AA, Moss FR 3rd, Nguyen P, Paulino J, Pawar KI, Peters JK, Pospiech TH Jr, Safari M, Sangwan S, Schaefer K, Thomas PV, Thwin AC, Trenker R, Tse E, Tsui TKM, Wang F, Whitis N, Yu Z, Zhang K, Zhang Y, Zhou F, Saltzberg D; QCRG Structural… See abstract for full author list ➔ Gordon DE, et al. Among authors: ideker t. Science. 2020 Dec 4;370(6521):eabe9403. doi: 10.1126/science.abe9403. Epub 2020 Oct 15. Science. 2020. PMID: 33060197 Free PMC article.
Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.
Roguev A, Bandyopadhyay S, Zofall M, Zhang K, Fischer T, Collins SR, Qu H, Shales M, Park HO, Hayles J, Hoe KL, Kim DU, Ideker T, Grewal SI, Weissman JS, Krogan NJ. Roguev A, et al. Among authors: ideker t. Science. 2008 Oct 17;322(5900):405-10. doi: 10.1126/science.1162609. Epub 2008 Sep 25. Science. 2008. PMID: 18818364 Free PMC article.
Host cell factors in HIV replication: meta-analysis of genome-wide studies.
Bushman FD, Malani N, Fernandes J, D'Orso I, Cagney G, Diamond TL, Zhou H, Hazuda DJ, Espeseth AS, König R, Bandyopadhyay S, Ideker T, Goff SP, Krogan NJ, Frankel AD, Young JA, Chanda SK. Bushman FD, et al. Among authors: ideker t. PLoS Pathog. 2009 May;5(5):e1000437. doi: 10.1371/journal.ppat.1000437. Epub 2009 May 29. PLoS Pathog. 2009. PMID: 19478882 Free PMC article. Review.
Rewiring of genetic networks in response to DNA damage.
Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guénolé A, van Attikum H, Shokat KM, Kolodner RD, Huh WK, Aebersold R, Keogh MC, Krogan NJ, Ideker T. Bandyopadhyay S, et al. Among authors: ideker t. Science. 2010 Dec 3;330(6009):1385-9. doi: 10.1126/science.1195618. Science. 2010. PMID: 21127252 Free PMC article.
Differential network biology.
Ideker T, Krogan NJ. Ideker T, et al. Mol Syst Biol. 2012 Jan 17;8:565. doi: 10.1038/msb.2011.99. Mol Syst Biol. 2012. PMID: 22252388 Free PMC article. Review.
Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ, Roguev A, Patrick K, Xu J, Jahari H, Tong Z, Beltrao P, Shales M, Qu H, Collins SR, Kliegman JI, Jiang L, Kuo D, Tosti E, Kim HS, Edelmann W, Keogh MC, Greene D, Tang C, Cunningham P, Shokat KM, Cagney G, Svensson JP, Guthrie C, Espenshade PJ, Ideker T, Krogan NJ. Ryan CJ, et al. Among authors: ideker t. Mol Cell. 2012 Jun 8;46(5):691-704. doi: 10.1016/j.molcel.2012.05.028. Mol Cell. 2012. PMID: 22681890 Free PMC article.
A gene ontology inferred from molecular networks.
Dutkowski J, Kramer M, Surma MA, Balakrishnan R, Cherry JM, Krogan NJ, Ideker T. Dutkowski J, et al. Among authors: ideker t. Nat Biotechnol. 2013 Jan;31(1):38-45. doi: 10.1038/nbt.2463. Nat Biotechnol. 2013. PMID: 23242164 Free PMC article.
281 results