Harvard:Biophysics 101/2007/Project
From OpenWetWare
Project Sections
- Could someone who typed this up today please add the other sections that are being worked on? --TChan, 12:47 20 March 2007
OMIM Parsing
- Resmi, Cynthia, and Hetmann
BLAST SNP to OMIM
- Zach, Mike, and Tiffany
BioPython Modification
- Relevant file: Python25/Lib/site-packages/Bio/Blast/NCBIWWW.py
- Discussion on BLAST SNP can proceed on the discussion page.
- Seq--> BlastSNP --> rs# (former hard, latter easy)
- Modifying BioPython BLAST
Parsing XMP from #2 in python
- Deniz
- OMIM download
- Zach - did you mean XML? I have XML in my notes... --Hetmann, 5:32 20 March 2007
Integration
- Katie
- PM / encourage documentation
OMIM XML Parse
- Xiaodi - completed?
- rs-->OMIM XML parse -> phenotype text
Chris
- if one gets multiple SNPs, which is revelant?
- linking to PubMED after finding disease
Kay
Beyond OMIM
- Tiffany, Resmi, Deniz, Xiaodi, Mike (note: ask if API exists)
- Wikipedia (Mike) http://meta.wikimedia.org/wiki/API
- Webmd (Tiff)
- Emedicine (Resmi)
- Google (Deniz)
- Linking out of XML (Xiaodi)
- MedStory (Mike?)
Unassigned
- not in SNP db... then what?
- OMIM DOA
- systematically nonsyn. -> mutation not in OMIM or dbSNP?
- other dbs: genecard (spec. conservation, pop. freq)
- looking into linking gene expression w/ GEO?
Project Ideas
Project ideas have been moved to their own page.