Computational identification of new structured cis-regulatory elements in the 3'-untranslated region of human protein coding genes.

ABSTRACT: Messenger ribonucleic acids (RNAs) contain a large number of cis-regulatory RNA elements that function in many types of post-transcriptional regulation. These cis-regulatory elements are often characterized by conserved structures and/or sequences. Although some classes are well known, given the wide range of RNA-interacting proteins in eukaryotes, it is likely that many new classes of cis-regulatory elements are yet to be discovered. An approach to this is to use computational methods that have the advantage of analysing genomic data, particularly comparative data on a large scale. In this study, a set of structural discovery algorithms was applied followed by support vector machine (SVM) classification. We trained a new classification model (CisRNA-SVM) on a set of known structured cis-r

SUBMITTER: Chen XS 

PROVIDER: S-EPMC3467077 | biostudies-literature | 2012 Oct

REPOSITORIES: biostudies-literature