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  • shum1
    Member
    • Apr 2010
    • 11
    #1

    chip seq and TRANSFAC

    hi all!

    I have done chipseq for finding TF binding sites in the target genes.

    Now I want to see which other factors can be near to that factor? I am using TRANSFAC but i dont know how i should proceed using bioinformatics tools?????
    Tags: None
  • galt
    Junior Member
    • Feb 2010
    • 1
    #2
    sequence analysis, post-ChIPSeq

    Originally posted by shum1 View Post
    hi all!

    I have done chipseq for finding TF binding sites in the target genes.

    Now I want to see which other factors can be near to that factor? I am using TRANSFAC but i dont know how i should proceed using bioinformatics tools?????
    Dear Shum1,
    I suggest you read MDScan documentation: paper and manual, and give it a try. It is a program designed by the same authors of MACS for the very purpose of analyzing sequences after (but not only) ChIPSeq experiments. Good work

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