DLocalMotif: a discriminative approach for discovering local motifs in protein sequences.

ABSTRACT:

Motivation

Local motifs are patterns of DNA or protein sequences that occur within a sequence interval relative to a biologically defined anchor or landmark. Current protein motif discovery methods do not adequately consider such constraints to identify biologically significant motifs that are only weakly over-represented but spatially confined. Using negatives, i.e. sequences known to not contain a local motif, can further increase the specificity of their discovery.

Results

This article introduces the method DLocalMotif that makes use of positional information and negative data for local motif discovery in protein sequences. DLocalMotif combines three scoring functions, measuring degrees of motif over-representation, entropy and spatial confinement, specifically designed t

SUBMITTER: Mehdi AM 

PROVIDER: S-EPMC6636396 | biostudies-literature | 2013 Jan

REPOSITORIES: biostudies-literature