Dataset for abundance of transcripts?

Q&A
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1

I am looking for a dataset to know abundance of different gene transcripts. I searched through the datasets available on depmap and found this? Is this the right dataset to use to answer this question?

OmicsExpressionTranscriptsTPMLogp1Profile.csv

Pipeline: Expression

RNAseq transcript tpm data using RSEM. Log2 transformed, using a pseudo-count of 1.

  • Rows: Omics Profile IDs
  • Columns: transcripts (HGNC symbol and ensembl transcript ID)
2

Hi,

Yes. Iā€™d also note that all files with the suffix ā€œProfile.csvā€ are indexed by ProfileIDs and you will need OmicsProfiles.csv to map them to ModelIDs if needed.

Thanks,
Simone

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