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Old 04-13-2010, 03:22 PM   #1
shum1
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Location: Sweden

Join Date: Apr 2010
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Angry 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?????
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Old 04-16-2010, 01:06 AM   #2
galt
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Location: London

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Cool sequence analysis, post-ChIPSeq

Quote:
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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