Computational Molecular Biology Journal Club 
Computational Genetics Discussion Group

Course Listings

The Journal Club is a cross-listed 1 hour seminar for credit: Course Masters:
Gary Stormo stormo@genetics.wustl.edu
Jeremy Buhler jbuhler@cse.wustl.edu

Website Contact:
Gary Stormo stormo@genetics.wustl.edu
 

Regular meetings:

4:45-5:45pm, Monday
Location: Genetics Library (Rm 823) McDonnell Sciences, Medical Campus.

Format of Group

The format will be one or two 20-30 minute presentations followed by open discussion.

  Spring 2007 Schedule

To sign up for an open date, email me (stormo@genetics.wustl.edu) with a date and (if possible) a topic title. If you wish to include a reference for a current paper or background review, you can send it later.

Topics: The Genetics department is currently doing a search for new faculty members in the fields of Computational Biology and Genomics. The candidates will be presenting their research in seminars in the Genetics department on Thursdays, at noon, for the first several weeks of the semester. This journal club will present papers from those candidates on the preceding Monday, to help introduce the research area of each candidate. After the faculty candidates have finished we will pick additional topics to cover for the rest of the semester.
 
Date Presenter Topic/Paper
1/22
Nick Lyle
 Papers by James Havranek: A simple physical model for the prediction and design of protein-DNA interactions. J Mol Biol. 2004 344(1):59-70.
 Computational redesign of endonuclease DNA binding and cleavage specificity. Nature. 2006 441:656-9.
1/29
 Robert Zeigler
 Paper by Wenying Shou Synthetic cooperation in engineered yeast populations
PNAS, in press
2/5
 Hien Tran
 Paper  by Jay R. Hesselberth Comparative analysis of Saccharomyces cerevisiae WW domains and their interacting proteins, Genome Biol. 2006;7(4):R30
2/12
No class
2/19
 Sung Chun Papers by Shyam Prabhakar: Detection of weakly conserved ancestral mammalian regulatory sequences by primate comparisons  and 
Primate-specific evolution of an LDLR enhancer
2/26
 Zhetao Zhang
 Papers for David Airey,
"Review of statistical methods for QTL mapping in experimental crosses." by Karl W. Broman;
"Bioinformatics toolbox for narrowing rodent quantitative trait loci" by Keith DiPetrillo et al.
3/5
 David Hall
 Paper by Zhirong Bao: Automated cell lineage tracing in Caenorhabditis elegans. Proc Natl Acad Sci U S A. 2006 February 21; 103(8): 2707–2712
3/12
 Yongkee Cho Paper by Xiaohui Xie A family of conserved noncoding elements derived from an ancient transposable element, PNAS 103 (31): 11659 (2006)
3/19
NO CLASS


TOPIC: phylogenetic alignments
3/26
 Alan Kwan
 Comparative annotation of viral genomes with non-conserved gene
structure. Bioinformatics. 2007 Mar 6, by de Groot, Mailund and Hein
4/2
 Arpith Jacob "Bayesian coestimation of phylogeny and sequence alignment" BMC Bioinformatics 6:83, 2005. by Lunter, Miklos, Drummond, Jensen and Hein
4/9
 Rachel Norgren
 		"Simultaneous Statistical Multiple Alignment and Phylogeny Resconstruction"
Systematic Biology 54:548, 2005   by Fleissner, Metzler and Haeseler
4/16
NO CLASS
4/23
 Yue Zhao
 "An efficient algorithm for statistical multiple alignment on arbitrary 
phylogenetic trees" by  Lunter GA, Miklos I, Song YS, Hein J.
4/30

5/7

5/12





Looking for a topic or paper?

Related Seminars:

Previous Semesters

Fall 2006 schedule
Spring 2006 schedule
Fall 2005 schedule
Spring 2005 schedule
Fall 2004 schedule
Spring 2004 schedule
Fall 2003 schedule
Spring 2003 schedule
Fall 2002 schedule
Spring 2002 schedule
Fall 2001 schedule
Spring 2001 schedule
Fall 2000 schedule
Spring 2000 Schedule
Fall 1999 schedule
Spring 1999 schedule
Fall 1998 schedule

If you are in the Washington University community and would like to be added to the computational genetics discussion group email list, or have further questions, please send a message to Gary Stormo  stormo@genetics.wustl.edu

Last updated : Monday Sept 13, 2004