# What are those ERCC genes in RNASeq data of 21Q1?

**URL:** https://forum.depmap.org/t/what-are-those-ercc-genes-in-rnaseq-data-of-21q1/2939
**Category:** Q&A
**Tags:** data
**Created:** [November 29, 2023, 4:39pm UTC](https://forum.depmap.org/t/what-are-those-ercc-genes-in-rnaseq-data-of-21q1/2939 "2023-11-29T16:39:04Z")
**Posts on this page:** 2
**Page:** 1

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### Author: ![yiming](https://avatars.discourse-cdn.com/v4/letter/y/f1d935/32.png) [@yiming](https://forum.depmap.org/u/yiming)
#### Post date: [November 29, 2023, 4:39pm UTC](https://forum.depmap.org/t/what-are-those-ercc-genes-in-rnaseq-data-of-21q1/2939/1 "2023-11-29T16:39:04Z")

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Hi, there:

for some reasons, I have to analyze the old RNAseq data from 21Q1 and I used DESeq2 package. In one of contrasts, there are lots of ERCC alike genes showed up in my differential gene list. They look like below:  
ERCC.00171  
ERCC.00113  
ERCC.00046  
ERCC.00071  
ERCC.00004  
ERCC.00078  
…

Based on URL: [Announcing the 22Q4 Release!](https://forum.depmap.org/t/announcing-the-22q4-release/2125), it was mentioned: DepMap has rebuilt the STAR and RSEM indices with reference genome that includes ERCC spike-in annotations and excludes ALT, HLA, and decoy contigs…  
I realized that those are likely ERCC spike-in, since their annotations not like other genes in format as LAPTM4A…ENSG00000068697., GPD1…ENSG00000167588…

I just want to double check with you guys to make sure,

Thx and best  
Ming

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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: [January 8, 2024, 2:21pm UTC](https://forum.depmap.org/t/what-are-those-ercc-genes-in-rnaseq-data-of-21q1/2939/2 "2024-01-08T14:21:58Z")

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Hi Ming,

Sorry for the late reply - you are correct.

Thanks,  
Simone