motif for TF within CTCF boundary
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6.8 years ago

Hi,

I want to find motif for my TF within the CTCF boundary. I have some 200 genes where I want to do this analysis. I was wondering if there is any tool to identify my TF binding motif within CTCF boundaries for all the genes in one go without doing it manually.

Thanks,

Ankur

ctcf genome R • 1.6k views
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Entering edit mode
6.8 years ago

FIMO will search for TF binding sites within your sequences of interest.

As input, you will need: 1) sequences of interest, and 2) PWMs for your TFs of interest (e.g., JASPAR, TRANSFAC, UniPROBE, etc.).

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Hi, How to determine the TAD boundary?

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