Network analysis of TCGA and GTEx gene expression datasets for identification of trait-associated biomarkers in human cancer

Abstract

Summary: Advances in high-throughput sequencing technologies now yield unprecedented volumes of OMICs data with opportunities to conduct systematic data analyses and derive novel biological insights. Here, we provide protocols to perform differential-expressed gene analysis of TCGA and GTEx RNA-Seq data from human cancers, complete integrative GO and network analyses with focus on clinical and survival data, and identify differential correlation of trait-associated biomarkers.For complete details on the use and execution of this protocol, please refer to Chen and MacDonald (2021).

Keywords

• Bioinformatics
• Cancer
• Genomics
• RNAseq
• Gene Expression
• Systems biology