dmExpr: Expression data from human cell lines

In Solatar/setR:

Description

Data from DepMap Public 20Q1 downloaded on March 09, 2020

Usage

data(dmExpr)

Format

An object of class "cross"; see read.cross.

Details

Description from the DepMap website:

RNAseq TPM gene expression data for just protein coding genes using RSEM. Log2 transformed, using a pseudo-count of 1.

Rows: cell lines (Broad IDs)

Columns: genes (HGNC symbol and Entrez ID)

CCLE expression data is quantified from RNAseq files using the GTEx pipelines. A detailed description of the pipelines and tool versions can be found here: https://github.com/broadinstitute/gtex-pipeline/blob/v9/TOPMed_RNAseq_pipeline.md. We provide a subset of the data files outputted from this pipeline available on FireCloud. These are aligned to hg38.

Source

DepMap download page

References

DepMap, Broad (2020): DepMap 20Q1 Public. figshare. Dataset doi:10.6084/m9.figshare.11791698.v2. (DepMap website)

Examples

data(dmExpr)
dmExpr[1:5,1:5]

Solatar/setR documentation built on Dec. 5, 2020, 10:50 p.m.