# What's the genome version and gene annotation file used for Depmap bulk RNA-Seq expression estimation?

**URL:** <https://forum.depmap.org/t/whats-the-genome-version-and-gene-annotation-file-used-for-depmap-bulk-rna-seq-expression-estimation/3792>\
**Category:** Q&A\
**Tags:** data\
**Created:** [November 20, 2024, 8:39pm UTC](https://forum.depmap.org/t/whats-the-genome-version-and-gene-annotation-file-used-for-depmap-bulk-rna-seq-expression-estimation/3792 "2024-11-20T20:39:53Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![bigbadbo](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/bigbadbo/32/1339_2.png) [@bigbadbo](https://forum.depmap.org/u/bigbadbo)\
**Post date:** [November 20, 2024, 8:39pm UTC](https://forum.depmap.org/t/whats-the-genome-version-and-gene-annotation-file-used-for-depmap-bulk-rna-seq-expression-estimation/3792/1 "2024-11-20T20:39:53Z")

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Dear Sir./Madam.,

Can I know what’s the genome version and gene annotation file (e.g. Gencode or Ensembl, which version) used for Depmap bulk RNA-Seq expression estimation?

Thanks,  
Bo

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**Author:** ![simz](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/simz/32/440_2.png) [@simz](https://forum.depmap.org/u/simz)\
**Post date:** [November 20, 2024, 9:28pm UTC](https://forum.depmap.org/t/whats-the-genome-version-and-gene-annotation-file-used-for-depmap-bulk-rna-seq-expression-estimation/3792/2 "2024-11-20T21:28:25Z")

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Hi Bo,

We currently use Gencode v38 to create references for RSEM. To generate the gene-level matrices, we mapped the ENSG IDs to gene symbols and Entrez IDs using BioMart version nov2020.

Best,  
Simone