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| Course Info |
CSE 590CB is a weekly seminar on Readings and Research in
Computational Biology, open to all graduate students in the computer,
biological, and mathematical sciences.
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| Schedule |
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| Papers, etc. |
Links to full papers below are often to journals that require a
paid subscription. The UW Library is generally a paid
subscriber, and you can freely access these articles if you do
so from an on-campus computer. For off-campus access,
look at the
library "proxy server" instructions.
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| Abstract: A common goal in DNA microarray experiments is to
identify genes that are differentially expressed between two or
more biological conditions. We describe a new method to
accomplish this when the observations are taken over time and
the goal is to detect temporal differential expression.
This is joint work with Wenzhong Xiao, Jeff Leek, and Ron Davis. Background reading: |
05/17: Identifying Recombination Hotspots from Population-Level Patterns of Genetic Variation -- Matthew Stephens
| Abstract: There has been much recent speculation (based on patterns of Linkage Disequilibrium), and occasionally experimental confirmation (via sperm typing), that rates of recombination across the human genome vary on a fine scale. In particular, some regions of the genome appear to contain "recombination hotspots", where recombination occurs at rates several times higher than the background average rate. However, current statistical methods for inferring the presence of recombination hotspots from patterns of Linkage Disequilibrium are limited: typically they are unable to make quantitative statements about the strength of the evidence for the existence of a hotspot, or its magnitude if it does indeed exist. I will describe a new statistical method for tackling this problem, which addresses these deficiencies using a model that explicitly relates patterns of LD to the underlying recombination rate. The method will be illustrated on simulated data; on data where sperm-typing experiments have confirmed the existence of a hotspot; and on resequenced genes from the SeattleSNP project. |
05/24: Primer Design for Sequencing Reactions and PCR -- Tobias Mann
CSE's Computational Molecular Biology research group
Interdisciplinary Ph.D. program in Computational Molecular Biology
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Computer Science & Engineering University of Washington Box 352350 Seattle, WA 98195-2350 (206) 543-1695 voice, (206) 543-2969 FAX [comments to cse590cb-webmaster@cs.washington.edu] | |