Uncovering deeply conserved motif combinations in rapidly evolving noncoding sequences.

ABSTRACT:

Background

Animal genomes contain thousands of long noncoding RNA (lncRNA) genes, a growing subset of which are thought to be functionally important. This functionality is often mediated by short sequence elements scattered throughout the RNA sequence that correspond to binding sites for small RNAs and RNA binding proteins. Throughout vertebrate evolution, the sequences of lncRNA genes changed extensively, so that it is often impossible to obtain significant alignments between sequences of lncRNAs from evolutionary distant species, even when synteny is evident. This often prohibits identifying conserved lncRNAs that are likely to be functional or prioritizing constrained regions for experimental interrogation.

Results

We introduce here LncLOOM, a novel algorithmic framework

SUBMITTER: Ross CJ 

PROVIDER: S-EPMC7798263 | biostudies-literature | 2021 Jan

REPOSITORIES: biostudies-literature