Identifying Conserved and Divergent Transcriptional Modules by Cross-species Matrix Decomposition on Microarray Data.

ABSTRACT: Cross-species comparison of gene expression profiles allows deciphering fundamental and species-specific transcriptional programs of cells and offers insight into organization and evolution of the genome and genetic network. Here, we propose an algorithm for comparing microarray data from different species to unravel transcriptional modules that are conserved or divergent through evolution. The proposed algorithm is based on cross-species matrix decomposition that includes a nonlinear independent component analysis followed a generalized probabilistic sparse matrix factorization on microarray data from different species. The proposed algorithm captures transcriptional modularity that might result from highly nonlinear interactions among genes, and partitions genes into mutually non-exclusi

SUBMITTER: Li H 

PROVIDER: S-EPMC2817969 | biostudies-literature | 2009 Mar

REPOSITORIES: biostudies-literature