How can I convert the data_mrna_seq_v2_rsem.txt in the Pancancer Atlas TCGA data to the TPM data? #11258
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songsong0425
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Hi, always thank you for your effort in maintaining the valuable data portal.
Although I searched for some answers(ex 1, ex 2, ex 3) and read the metadata, I couldn't clearly understand about the approach for converting the mrna_seq_v2_rsem data to the TPM data.
I found that data_mrna_seq_v2_rsem data represents the RSEM (Batch normalized from Illumina HiSeq_RNASeqV2) data.
In this case, how can I convert this data to the TPM data?
Someone answered in another post that the RNAseq V2 values are normalized TPM values by RSEM in here.
If it is correct, which version of the library was used; hg19? or hg38? (I guess hg19 since there was a data named
data_cna_hg19
)I need to match the gene names in CCLE that came from hg38, but I wonder if I can merge them with TCGA Pancancer Atlas data.
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