Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering.

ABSTRACT: The RFAM database defines families of ncRNAs by means of sequence similarities that are sufficient to establish homology. In some cases, such as microRNAs and box H/ACA snoRNAs, functional commonalities define classes of RNAs that are characterized by structural similarities, and typically consist of multiple RNA families. Recent advances in high-throughput transcriptomics and comparative genomics have produced very large sets of putative noncoding RNAs and regulatory RNA signals. For many of them, evidence for stabilizing selection acting on their secondary structures has been derived, and at least approximate models of their structures have been computed. The overwhelming majority of these hypothetical RNAs cannot be assigned to established families or classes. We present here a structur

SUBMITTER: Will S 

PROVIDER: S-EPMC1851984 | biostudies-literature | 2007 Apr

REPOSITORIES: biostudies-literature