RNAscClust: clustering RNA sequences using structure conservation and graph based motifs.

ABSTRACT:

Motivation

Clustering RNA sequences with common secondary structure is an essential step towards studying RNA function. Whereas structural RNA alignment strategies typically identify common structure for orthologous structured RNAs, clustering seeks to group paralogous RNAs based on structural similarities. However, existing approaches for clustering paralogous RNAs, do not take the compensatory base pair changes obtained from structure conservation in orthologous sequences into account.

Results

Here, we present RNAscClust , the implementation of a new algorithm to cluster a set of structured RNAs taking their respective structural conservation into account. For a set of multiple structural alignments of RNA sequences, each containing a paralog sequence included in a structu

SUBMITTER: Miladi M 

PROVIDER: S-EPMC5870858 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature