about the list of transcription factors of human in ENCODE

[韩伟超]

Dear Professor

Hi,

I am a student just beginning to study transcription factors of human. I found that the information of TFs is so comprehensive in ENCODE at UCSC and it's very useful for me.

And I found a list of TFs of human in https://genome.ucsc.edu/ENCODE/dataMatrix/encodeChipMatrixHuman.html.

Is there a whole list of human TFs available in https://genome.ucsc.edu/ENCODE/downloads.html? I don't konw which one contained all TFs of human. Could you help me?

Best Regards,

-Han

[Christopher Lee]

Hi Han,

Thank you for your question about downloading a list of human transcription factors. Please know the website for up-to-date information about the ENCODE project is no longer hosted at www.genome.ucsc.edu/ENCODE, rather the current ENCODE Consortium portal is located at https://www.encodeproject.org/ with a mailing list address of encod...@lists.stanford.edu.

That said, there is a way to view only the list of human transcription factors, although there will be a couple entries that are instead modified histone proteins, for example H3K79me2, and not transcription factors. To reach this list from the ChIP-seq experiment matrix, click the "Experiment Summary" link from the top menu:
https://genome.ucsc.edu/ENCODE/dataMatrix/encodeDataSummaryHuman.html

The "ChIP-seq Experiments" column on this page contains all the info from the ChIP Matrix page except the cell line info (so basically just the transcription factors). If you hover over each name, it will display a more detailed description of each protein target for the ChIP experiment.

Thank you again for your inquiry and using the UCSC Genome Browser. If you have any further
questions, please reply to gen...@soe.ucsc.edu. All messages sent to that address are archived
on a publicly-accessible forum. If your question includes sensitive data, you may send it instead
to genom...@soe.ucsc.edu.

Christopher Lee
UCSC Genomics Institute

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