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
4:45-5:45pm, Monday
Location: Center for Genome Sciences Classroom;
4444 Forest Park Blvd, Room 5206, Med School Campus
The format will be one 30 minute presentations followed by open discussion.
To sign up for an open date, email me (stormo@genetics.wustl.edu) with a date and (if possible) a paper you wish to present.
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Date |
Presenter |
Topic/Paper |
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Aug 31 |
Organization Meeting: We will decide the topics to be discussed this semester |
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Sep 7 |
No meeting |
Labor Day |
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Topic 1: Aligning
Networks |
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Sep 14 |
No meeting |
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Sep 21 |
No meeting |
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Sep 28 |
No meeting |
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Oct 5 |
Yue Zhao |
Alignment
and prediction of cis-regulatory modules based on a
probabilistic model of evolution. He X, Ling X,
Sinha S. PLos Comput Biol. 2009 5:e1000299.
(Saurabh Sinha will be the Genetics seminar speaker on Oct 8) |
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Oct 12 |
Roman Sloutsky |
Modeling
cellular machinery through biological network comparison Nature Biotechnology 24, 427 - 433 (2006)
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Oct 19 |
No meeting |
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Oct 26 |
Ryan Christensen |
A
systematic characterization of factors that regulate Drosophila segmentation
via a bacterial one-hybrid system. Noyes MB, Meng
X, Wakabayashi A, Sinha S, Brodsky MH, Wolfe SA. Nucleic
Acids Res. 36:2547-60. (2008) [Scot Wolfe will be Genetics
seminar speaker on Oct 29] |
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Topic 2: mapping short reads to genomic
sequence |
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Topic 2: Short read
alignment to reference genomes |
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Nov 2 |
No meeting |
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Nov 9 |
Jeremy Buhler |
How to
map billions of short reads onto genomes
Cole Trapnell & Steven L Salzberg, Nature Biotechnology 27, 455 - 457 (2009) Mapping
short DNA sequencing reads and calling variants using mapping quality scores Heng Li, Jue Ruan, and Richard Durbin, Genome Res. 2008 18: 1851-1858. Fast
and accurate short read alignment with Burrows-Wheeler transform Heng Li and Richard Durbin Bioinformatics. 2009 25: 1754-1760. |
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Nov 16 |
GiNell Elliott |
Fast Mapping of
Short Sequences with Mismatches, Insertions and Deletions Using Index
Structures Hoffman et al., PLoS Comput Biol. 2009 September; 5(9): e1000502. |
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Nov 23 |
Claire Schulkey |
SNP
detection for massively parallel whole-genome resequencing. Li, et al. Genome Res. June 2009 19: 1124-1132
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Nov 30 |
No meeting |
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Journals with many Comp Bio articles: