Proteome Profiling Outperforms Transcriptome Profiling for Coexpression Based Gene Function Prediction.

ABSTRACT: Coexpression of mRNAs under multiple conditions is commonly used to infer cofunctionality of their gene products despite well-known limitations of this "guilt-by-association" (GBA) approach. Recent advancements in mass spectrometry-based proteomic technologies have enabled global expression profiling at the protein level; however, whether proteome profiling data can outperform transcriptome profiling data for coexpression based gene function prediction has not been systematically investigated. Here, we address this question by constructing and analyzing mRNA and protein coexpression networks for three cancer types with matched mRNA and protein profiling data from The Cancer Genome Atlas (TCGA) and the Clinical Proteomic Tumor Analysis Consortium (CPTAC). Our analyses revealed a marked diff

SUBMITTER: Wang J 

PROVIDER: S-EPMC5217778 | biostudies-literature | 2017 Jan

REPOSITORIES: biostudies-literature