Computational Analysis of Muscular Dystrophy Sub-types Using A Novel Integrative Scheme.

ABSTRACT: To construct biologically interpretable gene sets for muscular dystrophy (MD) sub-type classification, we propose a novel computational scheme to integrate protein-protein interaction (PPI) network, functional gene set information, and mRNA profiling data. The workflow of the proposed scheme includes the following three major steps: firstly, we apply an affinity propagation clustering (APC) approach to identify gene sub-networks associated with each MD sub-type, in which a new distance metric is proposed for APC to combine PPI network information and gene-gene co-expression relationship; secondly, we further incorporate functional gene set knowledge, which complements the physical PPI information, into our scheme for biomarker identification; finally, based on the constructed sub-networks

SUBMITTER: Wang C 

PROVIDER: S-EPMC3389813 | biostudies-literature | 2012 Sep

REPOSITORIES: biostudies-literature