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The Spotted Microarray workflow - GenePix and the Ramhorn Array Database
Time: Wednesday, August 4, 9:00 am - noon
Place: Bioinformatics Computer Core Lab (Rm 104), Life Sciences Bldg
Organizers:
Paul Fawcett
Audience: Primarily 1st year students
Topics of session
Resources of session
Suggested Reading (for both days): Note that links are directly to .PDF files.
- Lieb JD, Liu X, Botstein D, Brown PO. Promoter-specific binding of Rap1 revealed
by genome-wide maps of protein-DNA association. Nat Genet. 2001 Aug;28(4):327-34
- Diehn M, Eisen MB, Botstein D, Brown PO. Large-scale identification of secreted and
membrane-associated gene products using DNA microarrays.
Nat Genet. 2000 May;25(1):58-62
- Pollack JR, Sorlie T, Perou CM, Rees CA, Jeffrey SS, Lonning PE,
Tibshirani R, Botstein D, Borresen-Dale AL, Brown PO. Microarray analysis reveals a major
direct role of DNA copy number alteration in the transcriptional program of human breast tumors.
Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12963-8
- Wang D, Urisman A, Liu YT, Springer M, Ksiazek TG, Erdman DD, Mardis
ER, Hickenbotham M, Magrini V, Eldred J, Latreille JP, Wilson RK, Ganem D, DeRisi JL. .
Viral discovery and sequence recovery using DNA microarrays. PLoS Biol. 2003 Nov;1(2):E2
- Hurowitz EH, Brown PO. Genome-wide analysis of mRNA lengths in
Saccharomyces cerevisiae. Genome Biol. 2003;5(1):R2
- Arava Y, Wang Y, Storey JD, Liu CL, Brown PO, Herschlag D. Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 2003 Apr
1;100(7):3889-94
Before coming to the session
- There is no formal problem set assigned for day 1. Instead, I
will announce a typical bioinformatics problem in class in the form of a contest.
- There will be a ca$h prize for the group that emails the correct answer to me first!
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