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  • Peaks vs. Genes

    I just thought I'd check on what people are using to correlate ChIP-Seq peaks vs. Gene locations at this point. I was trying to find a way to do it with Genome Browser. Any ideas?

  • #2
    You may use IGB or IGV to view the peaks and you may use the refseq gene ids (used if a gene has one or more transcripts). There are tutorials to use it.

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    • #3
      bedtools closestBed, R package ChIPpeakAnno...

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      • #4
        There is also CisGenome:

        Michael Black, Ph.D.
        ScitoVation LLC. RTP, N.C.

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