Eisen Lab http://rana.lbl.gov/eisen Evolution of Gene Expression and Gene Regulation in Flies, Fungi and Beyond Mon, 09 Nov 2009 18:54:58 +0000 http://wordpress.org/?v=2.3.3 en PloS Genetics Paper published June 2008 http://rana.lbl.gov/eisen/?p=58 http://rana.lbl.gov/eisen/?p=58#comments Thu, 23 Oct 2008 18:56:19 +0000 aaron http://rana.lbl.gov/eisen/?p=58 Read our latest paper on the functional conservation of enhancers from two fly families despite minimal sequence conservation:

Hare EE, Peterson BK, Iyer VN, Meier R, Eisen MB (2008) Sepsid even-skipped Enhancers Are Functionally Conserved in Drosophila Despite Lack of Sequence Conservation. PLoS Genet 4(6): e1000106. doi:10.1371/journal.pgen.1000106

]]> http://rana.lbl.gov/eisen/?feed=rss2&p=58 Journal club 5/9 http://rana.lbl.gov/eisen/?p=50 http://rana.lbl.gov/eisen/?p=50#comments Mon, 12 May 2008 22:41:40 +0000 rlusk http://rana.lbl.gov/eisen/?p=50 gene environment interactions/semantics party 2008

Cascading transcriptional effects of a naturally occurring frameshift mutation in Saccharomyces cerevisiae.
PMID: 18422925
Gene-Environment Interaction in Yeast Gene Expression.
PMID: 18416601

]]> http://rana.lbl.gov/eisen/?feed=rss2&p=50 Journal Club 4/25 http://rana.lbl.gov/eisen/?p=49 http://rana.lbl.gov/eisen/?p=49#comments Wed, 30 Apr 2008 03:41:32 +0000 rlusk http://rana.lbl.gov/eisen/?p=49 After a loooong hiatus of visits and parties and qualifying exams, good ol’ JC came back with a paper from Erin O’Shea’s lab: “Chromatin decouples promoter threshold from dynamic range.” Solid stuff.

PMID: 18418379

]]> http://rana.lbl.gov/eisen/?feed=rss2&p=49 Journal club 3/28 http://rana.lbl.gov/eisen/?p=48 http://rana.lbl.gov/eisen/?p=48#comments Fri, 28 Mar 2008 22:44:18 +0000 rlusk http://rana.lbl.gov/eisen/?p=48 Journal club!

Hell of oblong bicoid: “Shape and function of the Bicoid morphogen gradient in dipteran species with different sized embryos” from Gregor et al.

Hell of jumping nucleosomes: “Dynamic Remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation” from Shivaswamy et al.

Hell of pleiotropic scaling effects: “Pleiotropic scaling of gene effects and the ‘cost of complexity’” from Wagner et al.

Hell of what your new G-P-U can do for YOU: “High-throughput sequence alignment using Graphics Processing Units” from Schatz et al.

Hell of fun with circuit logic: “Programming gene expression with combinatorial promoters” from Cox et al.

]]> http://rana.lbl.gov/eisen/?feed=rss2&p=48 In vivo binding paper published in PLoS http://rana.lbl.gov/eisen/?p=40 http://rana.lbl.gov/eisen/?p=40#comments Wed, 27 Feb 2008 20:05:15 +0000 admin http://rana.lbl.gov/eisen/?p=40 Li, X.-Y., MacArthur, S., Bourgon, R., Nix, D.A., Pollard, D.A., Iyer V.N., Hechmer, A., Simirenko, L., Stapleton, M., Luengo Hendriks, C.L., Chu, H.C., Ogawa, N., Inwood, W., Sementchenko, V., Beaton, A., Weiszmann, R., Celniker, S.E., Knowles, D.W., Gingeras, G., Speed, T.P., Eisen, M.B., Biggin, M.D. (2008) Transcription Factors Bind Thousands of Active and Inactive Regions in the Drosophila Blastoderm. PLoS Biol. Feb 12;6(2):e27

]]> http://rana.lbl.gov/eisen/?feed=rss2&p=40