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  CSE 590CWi '09:  Reading & Research in Comp. Bio.
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 Course Info    CSE 590C is a weekly seminar on Readings and Research in Computational Biology, open to all graduate students in computational, biological, and mathematical sciences.
When/Where:  Mondays, 3:30 - 4:50, EEB 031 (schematic)
Organizers:  Joe Felsenstein, Bill Noble, Larry Ruzzo, Martin Tompa
Credit: 1-3 Variable
Grading: Credit/No Credit. Talk to the organizers if you are unsure of our expectations.
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 Date  Presenters/Participants Topic Details
01/05---- Organizational Meeting ----
01/12Michael Hawrylycz (Allen Institute)AGEA: An anatomic gene expression atlas for the mouse brain 
01/26Xiaoyu, MartinShewanellaDetails
02/02Dr. Andrew Grimson, Whitehead Inst., HHMIAnimal MicroRNAs: Their Ancient Origins and Contemporary TargetsNOTE SPECIAL LOCATION
02/09Adrienne, BillChromatin SignaturesDetails
02/23Aaron, JoeRegulatory NetworksDetails
03/02Benjamin, LarryShort-read AssemblyDetails
03/09Elizabeth, JoeAncestral DuplicationsDetails

 Papers, etc.

  Note on Electronic Access to Journals

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, follow the "[offcampus]" links below or look at the library "proxy server" instructions. You will be prompted for your UW net ID and password once per session.  

01/05: ---- Organizational Meeting ----

01/12: AGEA: An anatomic gene expression atlas for the mouse brain -- Michael Hawrylycz (Allen Institute)

01/19:   -- Holiday

01/26: Shewanella -- Xiaoyu, Martin

02/02: Animal MicroRNAs: Their Ancient Origins and Contemporary Targets -- Dr. Andrew Grimson, Whitehead Inst., HHMI

This talk is a Genome Sciences Seminar, to be held in the Foege Auditorium (Foege S-060) Monday 2/2 at 3:30.

02/09: Chromatin Signatures -- Adrienne, Bill

02/16:   -- Holiday

02/23: Regulatory Networks -- Aaron, Joe

03/02: Short-read Assembly -- Benjamin, Larry

  • MJ Chaisson, D Brinza, PA Pevzner, "De novo fragment assembly with short mate-paired reads: Does the read length matter?" Genome Res., (2008) . [offcampus]

03/09: Ancestral Duplications -- Elizabeth, Joe

(or possibly some other paper)
 Other  Seminars Past quarters of CSE 590C
COMBI & Genome Sciences Seminars
Applied Math Department Mathematical Biology Journal Club
Biostatistics Seminars
Microbiology Department Seminars
Zoology 525, Mathematical Biology Seminar Series

 Resources Molecular Biology for Computer Scientists, a primer by Lawrence Hunter (46 pages)
A Quick Introduction to Elements of Biology, a primer by Alvis Brazma et al.
S-Star Bioinformatics Online Course Schedule, a collection of video primers
A very comprehensive FAQ at, including annotated references to online tutorials and lectures.
CSE 527: Computational Biology
CSE 590TV: Computational Biology (Professional Masters Program)
Genome 540/541: Introduction to Computational Molecular Biology: Genome and Protein Sequence Analysis

CSE's Computational Molecular Biology research group
Interdisciplinary Ph.D. program in Computational Molecular Biology

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Seattle, WA  98195-2350
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