AlexLabNotebook/ChrIIIRebuild

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No longer working on this.


Chromosome rebuild

Assertion: Will rebuild chromosome III, because that's the one that's best-studied

Proposed schedule:

  • Complete chr III independent functional element list by 10/7
  • Put together ~20K long sequence for pilot project by 10/14
  • Figure out actual recombination & selection steps, send sequence out for synthesis by 10/30

Currently working on: Making list of independent functional elements.

Calendar

  • 09/05
    • 9/19/05-9/23/05: Made list of all features on chromosome III, started to gather data about how to define 5' and 3' ends of genes.
    • 9/24/05-9/30/05: Generated initial list of overlapping regions, figured out flanking sequences needed for Ty elements [none], sent gene sequences off to Joel Graber for 3' end prediction, started to look into ways to define 5' gene ends.
  • 10/05
    • 10/1/05-10/7/05: Downloaded conservation scores for [almost] all positions on chr III, generated conservation "profile" for all intergenic regions, used Pychart to generate plots of these profiles.
    • 10/8/05-10/14/05
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