Hello,
Is there a tool where you input a nucleotide sequence, and the tool outputs which transcription factors bind to that sequence?
Thank you
5 answers
I'd recommend the "Scan single sequences for TF binding" tool in CIS-BP using TFs from whatever species you're interested in, or TFs that you're interested in and added to your cart. Alternatively, FIMO is a popular tool from the MEME suite that can be used online, or run on the command line.
HOMER is the best tool I have used so far in terms of ease and good documentation , let me know if you need any help with it : http://homer.salk.edu/homer/index.html
Dear randalljellis, Hi.
"Catalog of Inferred Sequence Binding Preferences" would be a choice as it Scan a DNA sequence for potential binding sites and can Compare a given motif to all TFs in the database.
Try MEME suite,
Thank you all so much! I don't know what I would do without this community. I upvoted all of you :)
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