Smolke:Journal Club

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Next Meeting When: Where: Paper: Moderator: Suggested Future Papers Ray PS, Jia J, Yao P, Majumder M, Hatzoglou M, and Fox PL. A stress-responsive RNA switch regulates VEGFA expression. Nature. 2009 Feb 12;457(7231):915-9. DOI:10.1038/nature07598 | Runguphan W and O'Connor SE. Metabolic reprogramming of periwinkle plant culture. Nat Chem Biol. 2009 Mar;5(3):151-3. DOI:10.1038/nchembio.141 | Ham TS, Lee SK, Keasling JD, and Arkin AP. Design and construction of a double inversion recombination switch for heritable sequential genetic memory. PLoS One. 2008 Jul 30;3(7):e2815. DOI:10.1371/journal.pone.0002815 | Yu RC, Pesce CG, Colman-Lerner A, Lok L, Pincus D, Serra E, Holl M, Benjamin K, Gordon A, and Brent R. Negative feedback that improves information transmission in yeast signalling. Nature. 2008 Dec 11;456(7223):755-61. DOI:10.1038/nature07513 | Han J, Pedersen JS, Kwon SC, Belair CD, Kim YK, Yeom KH, Yang WY, Haussler D, Blelloch R, and Kim VN. Posttranscriptional crossregulation between Drosha and DGCR8. Cell. 2009 Jan 9;136(1):75-84. DOI:10.1016/j.cell.2008.10.053 | Fung E, Wong WW, Suen JK, Bulter T, Lee SG, and Liao JC. A synthetic gene-metabolic oscillator. Nature. 2005 May 5;435(7038):118-22. DOI:10.1038/nature03508 | Nevozhay D, Adams RM, Murphy KF, Josic K, and Balázsi G. Negative autoregulation linearizes the dose-response and suppresses the heterogeneity of gene expression. Proc Natl Acad Sci U S A. 2009 Mar 31;106(13):5123-8. DOI:10.1073/pnas.0809901106 | Kudla G, Murray AW, Tollervey D, and Plotkin JB. Coding-sequence determinants of gene expression in Escherichia coli. Science. 2009 Apr 10;324(5924):255-8. DOI:10.1126/science.1170160 | Comments on Papers I found the Ham et al. [3] paper extremely disappointing. If you want an example of what not to do, it's a good one. But otherwise I'd skip it. -Josh I suggested the Ham et al. [3] mostly to throw out a paper about synthetic information processing in cells. It is outside my area of familiarity, but I think it could be interesting, especially since that is what the Endy lab is gearing up to attack. So if anyone else has a good recent paper on some synthetic biology approach to information processing, I think that might be cool for us to read and critique. -Mike Voting on Papers Paper 1. Midori, Jay, Christina Paper 2. Mike, Josh Paper 3. Paper 4. Josh, Win, Christina, Yvonne Paper 5. Paper 6. Andrew Paper 7. Josh, Joe, Win, DK Paper 8. Josh, Win, DK, Yvonne Past Papers <biblio> lincoln pmid=19131595 lam pmid=19234448 <biblio>