Cupid: simultaneous reconstruction of microRNA-target and ceRNA networks.

ABSTRACT: We introduce a method for simultaneous prediction of microRNA-target interactions and their mediated competitive endogenous RNA (ceRNA) interactions. Using high-throughput validation assays in breast cancer cell lines, we show that our integrative approach significantly improves on microRNA-target prediction accuracy as assessed by both mRNA and protein level measurements. Our biochemical assays support nearly 500 microRNA-target interactions with evidence for regulation in breast cancer tumors. Moreover, these assays constitute the most extensive validation platform for computationally inferred networks of microRNA-target interactions in breast cancer tumors, providing a useful benchmark to ascertain future improvements.

SUBMITTER: Chiu HS 

PROVIDER: S-EPMC4315299 | biostudies-literature | 2015 Feb

REPOSITORIES: biostudies-literature