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aertslab / pySCENIC

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.
http://scenic.aertslab.org
GNU General Public License v3.0
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IDs for TFs missing #566

Open chrarnold opened 1 month ago

chrarnold commented 1 month ago

While I find the lists of TF names here (https://resources.aertslab.org/cistarget/tf_lists/), I cannot find anywhere which genes 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?

ghuls commented 1 month ago

TF list is using HGNC gene symbols. Use Ensembl Biomart or another tool to convert your gene IDs to HGNC gene symbols.