Hello! Is there a way I can feed a list of genes generated from a RNAseq experiment and find out which ones are transcription factors? This is in mouse. Any help is much appreciated.
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written
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snp87 •
1 answer
Dear snp87,
for a quick exploration, you cold try the enrichr tool (http://amp.pharm.mssm.edu/Enrichr/) and the Transcription section gene-set libraries.
If you want a more detailed and validated approach, as long as you have normalized counts of your RNA-Seq data, you should definately try the R packages CoRegNet (http://bioconductor.org/packages/release/bioc/vignettes/CoRegNet/inst/doc/CoRegNet.html) and TReNA (http://bioconductor.org/packages/devel/bioc/vignettes/trena/inst/doc/TReNA_Vignette.html).
Best,
Efstathios
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