LPRP: A Gene-Gene Interaction Network Construction Algorithm and Its Application in Breast Cancer Data Analysis.

ABSTRACT: The importance of the construction of gene-gene interaction (GGI) network to better understand breast cancer has previously been highlighted. In this study, we propose a novel GGI network construction method called linear and probabilistic relations prediction (LPRP) and used it for gaining system level insight into breast cancer mechanisms. We construct separate genome-wide GGI networks for tumor and normal breast samples, respectively, by applying LPRP on their gene expression datasets profiled by The Cancer Genome Atlas. According to our analysis, a large loss of gene interactions in the tumor GGI network was observed (7436; 88.7 % reduction), which also contained fewer functional genes (4757; 32 % reduction) than the normal network. Tumor GGI network was characterized by a bigger netwo

SUBMITTER: Su L 

PROVIDER: S-EPMC5838217 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature