Gene set-based module discovery decodes cis-regulatory codes governing diverse gene expression across human multiple tissues.

ABSTRACT: Decoding transcriptional programs governing transcriptomic diversity across human multiple tissues is a major challenge in bioinformatics. To address this problem, a number of computational methods have focused on cis-regulatory codes driving overexpression or underexpression in a single tissue as compared to others. On the other hand, we recently proposed a different approach to mine cis-regulatory codes: starting from gene sets sharing common cis-regulatory motifs, the method screens for expression modules based on expression coherence. However, both approaches seem to be insufficient to capture transcriptional programs that control gene expression in a subset of all samples. Especially, this limitation would be serious when analyzing multiple tissue data. To overcome this limitation, we

SUBMITTER: Niida A 

PROVIDER: S-EPMC2882937 | biostudies-literature | 2010 Jun

REPOSITORIES: biostudies-literature