How can I download gene length data

Q&A
1

I downloaded the file named “OmicsExpressionGenesExpectedCountProfile.csv” from the depmap site and tried to calculate TPM from the gene and sample matrices, but I cannot find the gene length data for each gene that is needed to calculate TPM.
If the data in the file named “OmsExpressedGenesExpectedCountProfile.csv” was obtained from RSEM, then the RSEM should have output different gene length data for each sample. Can someone please tell me the location of the data?

2

Hi,

Sorry for the delayed reply. Unfortunately we currently don’t release gene length data from RSEM. However, starting from 23Q2 we are releasing transcript-level TPM data (OmicsExpressionTranscriptsTPMLogp1Profile.csv) which you can map to gene-level if needed. Hope this helps!

Thanks,
Simone