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Analyze Association between Gene (Signature) and Drug Response with CCLE Data

Source: R/analyze_gene_drug_response.R
analyze_gene_drug_response_asso.Rd

Analyze partial correlation of gene-drug association after controlling for tissue average expression.

Usage

analyze_gene_drug_response_asso(gene_list, combine = FALSE)

Arguments

gene_list

a gene symbol list.

combine

if TRUE, combine the expression of gene list as a gene signature.

Value

a data.frame

  • If combine is TRUE, genes are combined as signature.

  • mean.diff and median.diff indicate mean and median of normalized expression difference between High IC50 cells and Low IC50 cells. The cutoff between High and Low are median IC50.

Examples

if (FALSE) {
analyze_gene_drug_response_asso("TP53")
analyze_gene_drug_response_asso(c("TP53", "KRAS"))
analyze_gene_drug_response_asso(c("TP53", "KRAS"), combine = TRUE)

# Visualization
vis_gene_drug_response_asso("TP53")
}