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Transcriptional networks: reverse-engineering gene regulation on a global scale.
Chua G, Robinson MD, Morris Q, Hughes TR. Chua G, et al. Among authors: hughes tr. Curr Opin Microbiol. 2004 Dec;7(6):638-46. doi: 10.1016/j.mib.2004.10.009. Curr Opin Microbiol. 2004. PMID: 15556037 Review.
Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters.
Wu LF, Hughes TR, Davierwala AP, Robinson MD, Stoughton R, Altschuler SJ. Wu LF, et al. Among authors: hughes tr. Nat Genet. 2002 Jul;31(3):255-65. doi: 10.1038/ng906. Epub 2002 Jun 24. Nat Genet. 2002. PMID: 12089522
Yeast and drug discovery.
Hughes TR. Hughes TR. Funct Integr Genomics. 2002 Sep;2(4-5):199-211. doi: 10.1007/s10142-002-0059-1. Epub 2002 May 31. Funct Integr Genomics. 2002. PMID: 12192593 Review.
FunSpec: a web-based cluster interpreter for yeast.
Robinson MD, Grigull J, Mohammad N, Hughes TR. Robinson MD, et al. Among authors: hughes tr. BMC Bioinformatics. 2002 Nov 13;3:35. doi: 10.1186/1471-2105-3-35. Epub 2002 Nov 13. BMC Bioinformatics. 2002. PMID: 12431279 Free PMC article.
Organization and function of APT, a subcomplex of the yeast cleavage and polyadenylation factor involved in the formation of mRNA and small nucleolar RNA 3'-ends.
Nedea E, He X, Kim M, Pootoolal J, Zhong G, Canadien V, Hughes T, Buratowski S, Moore CL, Greenblatt J. Nedea E, et al. Among authors: hughes t. J Biol Chem. 2003 Aug 29;278(35):33000-10. doi: 10.1074/jbc.M304454200. Epub 2003 Jun 20. J Biol Chem. 2003. PMID: 12819204
A panoramic view of yeast noncoding RNA processing.
Peng WT, Robinson MD, Mnaimneh S, Krogan NJ, Cagney G, Morris Q, Davierwala AP, Grigull J, Yang X, Zhang W, Mitsakakis N, Ryan OW, Datta N, Jojic V, Pal C, Canadien V, Richards D, Beattie B, Wu LF, Altschuler SJ, Roweis S, Frey BJ, Emili A, Greenblatt JF, Hughes TR. Peng WT, et al. Among authors: hughes tr. Cell. 2003 Jun 27;113(7):919-33. doi: 10.1016/s0092-8674(03)00466-5. Cell. 2003. PMID: 12837249
RAM: a conserved signaling network that regulates Ace2p transcriptional activity and polarized morphogenesis.
Nelson B, Kurischko C, Horecka J, Mody M, Nair P, Pratt L, Zougman A, McBroom LD, Hughes TR, Boone C, Luca FC. Nelson B, et al. Among authors: hughes tr. Mol Biol Cell. 2003 Sep;14(9):3782-803. doi: 10.1091/mbc.e03-01-0018. Epub 2003 May 29. Mol Biol Cell. 2003. PMID: 12972564 Free PMC article.
Yeast genomics and proteomics in drug discovery and target validation.
Parsons AB, Geyer R, Hughes TR, Boone C. Parsons AB, et al. Among authors: hughes tr. Prog Cell Cycle Res. 2003;5:159-66. Prog Cell Cycle Res. 2003. PMID: 14593709 Review.
Integration of chemical-genetic and genetic interaction data links bioactive compounds to cellular target pathways.
Parsons AB, Brost RL, Ding H, Li Z, Zhang C, Sheikh B, Brown GW, Kane PM, Hughes TR, Boone C. Parsons AB, et al. Among authors: hughes tr. Nat Biotechnol. 2004 Jan;22(1):62-9. doi: 10.1038/nbt919. Epub 2003 Dec 7. Nat Biotechnol. 2004. PMID: 14661025
A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1.
Krogan NJ, Keogh MC, Datta N, Sawa C, Ryan OW, Ding H, Haw RA, Pootoolal J, Tong A, Canadien V, Richards DP, Wu X, Emili A, Hughes TR, Buratowski S, Greenblatt JF. Krogan NJ, et al. Among authors: hughes tr. Mol Cell. 2003 Dec;12(6):1565-76. doi: 10.1016/s1097-2765(03)00497-0. Mol Cell. 2003. PMID: 14690608
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