Discovery and scoring of protein interaction subnetworks discriminative of late stage human colon cancer.

ABSTRACT: We used a systems biology approach to identify and score protein interaction subnetworks whose activity patterns are discriminative of late stage human colorectal cancer (CRC) versus control in colonic tissue. We conducted two gel-based proteomics experiments to identify significantly changing proteins between normal and late stage tumor tissues obtained from an adequately sized cohort of human patients. A total of 67 proteins identified by these experiments was used to seed a search for protein-protein interaction subnetworks. A scoring scheme based on mutual information, calculated using gene expression data as a proxy for subnetwork activity, was developed to score the targets in the subnetworks. Based on this scoring, the subnetwork was pruned to identify the specific protein combinati

SUBMITTER: Nibbe RK 

PROVIDER: S-EPMC2667362 | biostudies-literature | 2009 Apr

REPOSITORIES: biostudies-literature