Question: how to find motif by UCSC
0
gravatar for newbiebio
2.3 years 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 • 1.9k views
ADD COMMENTlink modified 12 months ago by samzhao0 • written 2.3 years ago by newbiebio80
2
gravatar for Alex Reynolds
2.3 years ago by
Alex Reynolds27k
Seattle, WA USA
Alex Reynolds27k wrote:

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

ADD COMMENTlink written 2.3 years ago by Alex Reynolds27k
1
gravatar for genecats.ucsc
2.3 years 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 2.3 years ago • written 2.3 years ago by genecats.ucsc560
0
gravatar for samzhao
12 months ago by
samzhao0
samzhao0 wrote:

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

ADD COMMENTlink written 12 months ago by samzhao0
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