Harvard:Biophysics 101/2007/Project

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* ATTENTION: Everyone needs to post their code to one place.  Let's say everyone post a link from here that works to their code and then I'll be able to combine it all. --[[User:Katie Fifer]]
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* ATTENTION: Everyone needs to post their code to one place.  Let's say everyone post a link from here that works to their code and then I'll be able to combine it all. --[[User:Kfifer|Katie Fifer]]
* Could someone who typed this up today please add the other sections that are being worked on? '''--[[User:TChan|TChan]], 12:47 20 March 2007'''
* Could someone who typed this up today please add the other sections that are being worked on? '''--[[User:TChan|TChan]], 12:47 20 March 2007'''

Revision as of 07:57, 22 March 2007

Biophysics 101: Genomics, Computing, and Economics

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Contents

Project Sections

  • ATTENTION: Everyone needs to post their code to one place. Let's say everyone post a link from here that works to their code and then I'll be able to combine it all. --Katie Fifer
  • Could someone who typed this up today please add the other sections that are being worked on? --TChan, 12:47 20 March 2007
  • The following is from the information that Zach typed up in class (Located here) --Hetmann, 5:32 20 March 2007

OMIM Parsing

  • Resmi, Cynthia, and Hetmann

BLAST SNP to OMIM

  • Zach, Mike, and Tiffany

BioPython Modification

  • Modifying BioPython BLAST

Parsing XML from #2 in python

  • Deniz
  • OMIM download

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)

Unassigned

  1. not in SNP db... then what? - I'd like to point out new efforts that aim to replace OMIM, called the "Human Variome Project" -- Deniz
  2. OMIM DOA
  3. systematically nonsyn. -> mutation not in OMIM or dbSNP?
  4. other dbs: genecard (spec. conservation, pop. freq)
  5. looking into linking gene expression w/ GEO?

Project Ideas

Project ideas have been moved to their own page.
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