A Pipeline to Call Multilevel Expression Changes between Cancer and Normal Tissues and Its Applications in Repurposing Drugs Effective for Gastric Cancer

Figure 1

An overview of the pipeline. Four major steps are (1) differential expression genes analysis (DEGs) using TCGA dataset; (2) construction of gene coexpression network using WGCNA R packages to obtain clustering module; (3) perform functional enrichment analysis for each module, select cancer-related functional modules for subnetwork analysis, and screen for key genes; and (4) compare the gene expression characteristics induced by drug disturbances in CREEDS with DEGs, key modules, and key genes and select drugs with high overlap into the candidate list.