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aertslab / pycistarget

pycistarget is a python module to perform motif enrichment analysis in sets of regions with different tools and identify high confidence TF cistromes.
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Correspond gene ID for each TF name #38

Open chrarnold opened 3 months ago

chrarnold commented 3 months ago

While I find the lists of TF names here (https://resources.aertslab.org/cistarget/tf_lists/), I cannot find anywhere which genes / motifs these TFs correspond to. I'd like to associate each TF in the list with a gene, how can I achieve that? Are the TF names generally gene symbols that are found in the human genome exactly as they appear, or it is more involved?

As names can be ambiguous and subject to change, which version of which annotation has been used?

ghuls commented 2 weeks ago

TF names are HGNC gene symbols for human, MGI gene symbols for mouse and FlyBase Gene names for Fly. Motifs in our collection date back as far as 20 years and annotations are updated to recent gene symbol names.