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How to obtain predicted or lab-verified TFBS in UCSC Genome Browser?

I would like to obtain 2 data (any transcription factor will do) that have predicted or lab-verified transcription factor binding sites from UCSC genome browser. In Table Browser, I chose Regulation in the Group option and TFBS Conserved for Track. In the identifiers (names/accessions) part, I would like to know which identifier can return me more than 2000 sequences?

Can anyone help me?

tfbs gene ucsc
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updated by Ram Ram • written by allyson1115ar • allyson1115ar

2 answers

You can also download the mysql table tfbsConsSites from http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/ or connect directly to the UCSC mysql server and get the table from there http://genome.ucsc.edu/goldenpath/help/mysql.html

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updated by Ram Ram • written by Maximilian Haeussler Maximilian Haeussler

Hello,

if you want to retrieve all TFBSs from the TFBS Conserved track you basically do not need to put any identifier. Just go to "get output", choosing e.g. "sequence" as output format. You can extend, if you like, your TFBSs in the following menu.

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updated by Ram Ram • written by Anima Mundi Anima Mundi

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