HIPPI: highly accurate protein family classification with ensembles of HMMs.

ABSTRACT:

Background

Given a new biological sequence, detecting membership in a known family is a basic step in many bioinformatics analyses, with applications to protein structure and function prediction and metagenomic taxon identification and abundance profiling, among others. Yet family identification of sequences that are distantly related to sequences in public databases or that are fragmentary remains one of the more difficult analytical problems in bioinformatics.

Results

We present a new technique for family identification called HIPPI (Hierarchical Profile Hidden Markov Models for Protein family Identification). HIPPI uses a novel technique to represent a multiple sequence alignment for a given protein family or superfamily by an ensemble of profile hidden Markov models comp

SUBMITTER: Nguyen NP 

PROVIDER: S-EPMC5123343 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature