# DepMap Expression Public 20Q2

**URL:** <https://forum.depmap.org/t/depmap-expression-public-20q2/101>\
**Category:** Q&A\
**Tags:** omics\
**Created:** [July 23, 2020, 8:52pm UTC](https://forum.depmap.org/t/depmap-expression-public-20q2/101 "2020-07-23T20:52:36Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![maryam\_shakeri](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/maryam_shakeri/32/49_2.png) [@maryam\_shakeri](https://forum.depmap.org/u/maryam_shakeri)\
**Post date:** [July 23, 2020, 8:52pm UTC](https://forum.depmap.org/t/depmap-expression-public-20q2/101/1 "2020-07-23T20:52:36Z")

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Hello,

I was wondering what the data from Expression public 20Q2 is based on. How do they measure expression levels of each gene, is it based on RNA, protein levels, or something else? Is there anywhere I could find the methods for obtaining this dataset?

Thanks!!

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<div class="post-metadata">

**Author:** ![jnoorbak](https://yyz1.discourse-cdn.com/flex035/user_avatar/forum.depmap.org/jnoorbak/32/12_2.png) [@jnoorbak](https://forum.depmap.org/u/jnoorbak)\
**Post date:** [July 27, 2020, 1:38pm UTC](https://forum.depmap.org/t/depmap-expression-public-20q2/101/2 "2020-07-27T13:38:40Z")

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The data is based on RNA. We take the bam file, align it to hg38 using [STAR](https://academic.oup.com/bioinformatics/article/29/1/15/272537), and apply [RSEM](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-12-323) to get TPM values. The values reported in the expression files are log2(TPM+1).

You can take a look at our pipelines [here](https://github.com/broadinstitute/ccle_processing).