Kun:LabNotes/CpgSeq/2013-11-24

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Revision as of 19:15, 24 November 2013 by KunZhang (talk | contribs) (Created page with "==Probe design for the NICE project== *Dinh went through one round of design using ppDesigner v1.1. However, upon close inspection, I found that some capturing arms contain lo...")
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Probe design for the NICE project

  • Dinh went through one round of design using ppDesigner v1.1. However, upon close inspection, I found that some capturing arms contain long stretches of poly-Ts or poly-Gs.
  • I modified get_probes.pl, and filtered out any candidate capturing arm that has over 6 A/T/G/Cs.
  • I repeated the probe design.
    • Set I: gap size = 400-450bp, flanking len = 250bp
    • Set II: gap size = 125-175bp, flanking len = 125bp