Deciphering the associations between gene expression and copy number alteration using a sparse double Laplacian shrinkage approach.

ABSTRACT: MOTIVATION:Both gene expression levels (GEs) and copy number alterations (CNAs) have important biological implications. GEs are partly regulated by CNAs, and much effort has been devoted to understanding their relations. The regulation analysis is challenging with one gene expression possibly regulated by multiple CNAs and one CNA potentially regulating the expressions of multiple genes. The correlations among GEs and among CNAs make the analysis even more complicated. The existing methods have limitations and cannot comprehensively describe the regulation. RESULTS:A sparse double Laplacian shrinkage method is developed. It jointly models the effects of multiple CNAs on multiple GEs. Penalization is adopted to achieve sparsity and identify the regulation relationships. Network adjacency is

SUBMITTER: Shi X 

PROVIDER: S-EPMC5013934 | biostudies-literature | 2015 Dec

REPOSITORIES: biostudies-literature