Stephanopoulos:Literature Reviewed

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Literature Reviewed

The purpose of this page is to post the recent articles that we review in our nearly-weekly literature review presentations. Sometimes the presenter focuses on a particular paper, and sometimes the roughly one-hour talk gives a brief overview of an important series of related papers.

4 May 2006: Joel Moxley

Joel gave an excellent overview of several landmark papers about new tools for high-throughput data collection in systems biology.

  1. Pokholok DK, Harbison CT, Levine S, Cole M, Hannett NM, Lee TI, Bell GW, Walker K, Rolfe PA, Herbolsheimer E, Zeitlinger J, Lewitter F, Gifford DK, and Young RA. Genome-wide map of nucleosome acetylation and methylation in yeast. Cell. 2005 Aug 26;122(4):517-27. DOI:10.1016/j.cell.2005.06.026 | PubMed ID:16122420 | HubMed [Joel1]
  2. Gresham D, Ruderfer DM, Pratt SC, Schacherer J, Dunham MJ, Botstein D, and Kruglyak L. Genome-wide detection of polymorphisms at nucleotide resolution with a single DNA microarray. Science. 2006 Mar 31;311(5769):1932-6. DOI:10.1126/science.1123726 | PubMed ID:16527929 | HubMed [Joel2]
  3. Ptacek J, Devgan G, Michaud G, Zhu H, Zhu X, Fasolo J, Guo H, Jona G, Breitkreutz A, Sopko R, McCartney RR, Schmidt MC, Rachidi N, Lee SJ, Mah AS, Meng L, Stark MJ, Stern DF, De Virgilio C, Tyers M, Andrews B, Gerstein M, Schweitzer B, Predki PF, and Snyder M. Global analysis of protein phosphorylation in yeast. Nature. 2005 Dec 1;438(7068):679-84. DOI:10.1038/nature04187 | PubMed ID:16319894 | HubMed [Joel3]
  4. Sopko R, Huang D, Preston N, Chua G, Papp B, Kafadar K, Snyder M, Oliver SG, Cyert M, Hughes TR, Boone C, and Andrews B. Mapping pathways and phenotypes by systematic gene overexpression. Mol Cell. 2006 Feb 3;21(3):319-30. DOI:10.1016/j.molcel.2005.12.011 | PubMed ID:16455487 | HubMed [Joel4]
  5. Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, Peregrín-Alvarez JM, Shales M, Zhang X, Davey M, Robinson MD, Paccanaro A, Bray JE, Sheung A, Beattie B, Richards DP, Canadien V, Lalev A, Mena F, Wong P, Starostine A, Canete MM, Vlasblom J, Wu S, Orsi C, Collins SR, Chandran S, Haw R, Rilstone JJ, Gandi K, Thompson NJ, Musso G, St Onge P, Ghanny S, Lam MH, Butland G, Altaf-Ul AM, Kanaya S, Shilatifard A, O'Shea E, Weissman JS, Ingles CJ, Hughes TR, Parkinson J, Gerstein M, Wodak SJ, Emili A, and Greenblatt JF. Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature. 2006 Mar 30;440(7084):637-43. DOI:10.1038/nature04670 | PubMed ID:16554755 | HubMed [Joel5]
All Medline abstracts: PubMed | HubMed