Question: how to find motif by UCSC
0
gravatar for newbiebio
22 months ago by
newbiebio80
newbiebio80 wrote:

I have several transcript factor and want to exact their motif by UCSC. The result should have motif position, motif probablity and motif sequence.

ucsc • 1.4k views
ADD COMMENTlink modified 7 months ago by samzhao0 • written 22 months ago by newbiebio80
2
gravatar for Alex Reynolds
22 months ago by
Alex Reynolds26k
Seattle, WA USA
Alex Reynolds26k wrote:

If you have the TF probability model, you can do a FIMO scan to get the position, probability and sequence.

ADD COMMENTlink written 22 months ago by Alex Reynolds26k
1
gravatar for genecats.ucsc
22 months ago by
genecats.ucsc560
genecats.ucsc560 wrote:

Hello.

Thank you for your question about finding transcription factor binding motifs in the UCSC Genome Browser. We have several tracks for the human hg19 assembly that include transcription factor binding information:

You can also search our public mailing list archives to see other questions related to transcription factor binding motifs: https://groups.google.com/a/soe.ucsc.edu/forum/#!searchin/genome/transcription$20factor$20motif%7Csort:date.

If you have any follow-up questions, it would be helpful if you could post them to our Google Groups forum: https://groups.google.com/a/soe.ucsc.edu/forum/#!forum/genome, that way our whole team can see the question and help with an answer.

Thanks,

Matthew from the UCSC Genome Browser

ADD COMMENTlink modified 22 months ago • written 22 months ago by genecats.ucsc560
0
gravatar for samzhao
7 months ago by
samzhao0
samzhao0 wrote:

see this https://groups.google.com/a/soe.ucsc.edu/forum/#!topic/genome/2vPu0t7BDuw

ADD COMMENTlink written 7 months ago by samzhao0
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