Kun:LabNotes/CpgSeq/2009-6-9: Difference between revisions

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*To do this, the all CGs in the H2 arms were replaced by YGs. Then resulting sequences were concatenated with two flanking sequences.
*To do this, the all CGs in the H2 arms were replaced by YGs. Then resulting sequences were concatenated with two flanking sequences.
         ATCCGATC---H2---GTCGGACCTC
         ATCCGATC---H2---GTCGGACCTC
  [[Media:IDT_Cpg97k_suppressor_oligos.xls|Oligo sequences submitted to IDT]]

Revision as of 15:23, 9 June 2009

Data analysis of the end-sequencing results from the two Cpg97k captured libraries

                      Pre-normalization     Post-normalization
   # raw reads              633,866                594,422 
   # mappable reads         516,594                429,326
   # targets found           34,695                 45,422
  File:Cpg97k-endSeq-normalization-scatterplot.png
  File:Cpg97k-endSeq-normalization-ranked-curves.png

Suppressor oligos

  • The probes were sorted based on the read counts in the post-normalized library.
  • 96 suppressor oligos were design for the top 96 targets.
  • To do this, the all CGs in the H2 arms were replaced by YGs. Then resulting sequences were concatenated with two flanking sequences.
        ATCCGATC---H2---GTCGGACCTC
  Oligo sequences submitted to IDT