title: Computational prediction of RNA structural motifs involved in post-transcriptional regulatory processes.
abstract: mRNA molecules are tightly regulated, mostly through interactions with proteins and other RNAs, but the mechanisms that confer the specificity of such interactions are poorly understood. It is clear, however, that this specificity is determined by both the nucleotide sequence and secondary structure of the mRNA. We developed RNApromo, an efficient computational tool for identifying structural elements within mRNAs that are involved in specifying post-transcriptional regulations. Using RNApromo, we predicted putative motifs in sets of mRNAs with substantial experimental evidence for common post-transcriptional regulation, including mRNAs with similar decay rates, mRNAs that are bound by the same RNA binding protein, and mRNAs with a common cellular localization. Our new RNA motif discovery tool reveals unexplored layers of post-transcriptional regulations in groups of RNAs, and is therefore an important step toward a better understanding of the regulatory information conveyed within RNA molecules.
authors: Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehoboth, Rehovot, Israel.
authors: Michal
authors: M
authors: Rabani
authors: Michael
authors: M
authors: Kertesz
authors: Eran
authors: E
authors: Segal
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D015894:Genome, Human / Q000235:genetics; D006801:Humans; D035683:MicroRNAs / Q000235:genetics / Q000378:metabolism; D012313:RNA / Q000235:genetics* / Q000378:metabolism*; D012323:RNA Processing, Post-Transcriptional / Q000235:genetics*; D038621:Regulatory Sequences, Ribonucleic Acid / Q000235:genetics*
chemical_list: D035683:MicroRNAs; D038621:Regulatory Sequences, Ribonucleic Acid; D012313:RNA