Distinguishing protein-coding from non-coding RNAs through support vector machines.

ABSTRACT: RIKEN's FANTOM project has revealed many previously unknown coding sequences, as well as an unexpected degree of variation in transcripts resulting from alternative promoter usage and splicing. Ever more transcripts that do not code for proteins have been identified by transcriptome studies, in general. Increasing evidence points to the important cellular roles of such non-coding RNAs (ncRNAs). The distinction of protein-coding RNA transcripts from ncRNA transcripts is therefore an important problem in understanding the transcriptome and carrying out its annotation. Very few in silico methods have specifically addressed this problem. Here, we introduce CONC (for "coding or non-coding"), a novel method based on support vector machines that classifies transcripts according to features they w

SUBMITTER: Liu J 

PROVIDER: S-EPMC1449884 | biostudies-literature | 2006 Apr

REPOSITORIES: biostudies-literature