Hi all, When I look at the TOPMed_RNAseq_pipeline, GRCh38 reference genome and GENCODE 34 annotation is used, but it seems the genes of 21Q3 RNAseq data is not concordant with GENCODE 34 gene set. We have RNAseq data of several cell lines, and we want to process these data using the same databse a…

About the genome and gene version in "DepMap Public 21Q3" CCLE_expression.csv file

jnoorbak October 4, 2021, 4:47pm 2

Hi, a similar question has been posted here. Please let me know if the information there answers your question. -thanks

Topic		Replies	Views
Specific gene model used in 22Q1 CCLE RNASEQ files Q&A	1	337	April 24, 2022
The gene mRNA expression in different version is different Q&A data	7	811	November 1, 2021
What's the genome version and gene annotation file used for Depmap bulk RNA-Seq expression estimation? Q&A data	1	24	November 20, 2024
[IMPORTANT UPDATE] Issues with DepMap 20Q4 data Issues and Bugs	6	3836	January 9, 2021
How are the gene counts obtained for the mRNA expression datasets of DepMap 22Q2? Q&A omics , data	2	977	February 4, 2023