Biomarkers: Drug sensitivity data for genes in the GRCh38.p13 genome...
In EvgeniyaGorobets/PGxVision: Visualize Biomarkers and Pharmacogenomic Data

Description Usage Format Source

A dataset containing drug sensitivity signatures for cancer cell-line experiments. Each row contains the computed drug sensitivity signature (estimate, p-value, fdr, n) of a single gene in a single experiment (an experiment is defined by a tissue, compound/drug, and molecular data type).

1	Biomarkers

A data frame with 7805 rows and 12 variables:

gene: ENSEMBL gene name
compound: name of compound used in experiment
tissue: name of tissue used in experiment
estimate: The drug sensitivity estimate
n: The number of trials
fdr: false discovery rate (adjusted p-value)
mDataType: the molecular data type, i.e., rna, cnv, etc.
gene_seq_start: the relative starting position of the gene within the chromosome
gene_seq_end: the relative ending position of the gene within the chromosome
strand: which strand of DNA the gene is located on (+/-)
chr: the chromosome on which the gene is located
pvalue: the p-value of the drug response

Feizi, N., Nair, S. K., Smirnov, P., Beri, G., Eeles, C., Esfahani, P. N., … Haibe-Kains, B. (2021). PharmacoDB 2.0: Improving scalability and transparency of in vitro pharmacogenomics analysis. _bioRxiv._ doi:10.1101/2021.09.21.461211

EvgeniyaGorobets/PGxVision documentation built on Dec. 17, 2021, 7:26 p.m.