The University of Southampton
University of Southampton Institutional Repository

BADASP: predicting functional specificity in protein families using ancestral sequences

BADASP: predicting functional specificity in protein families using ancestral sequences
BADASP: predicting functional specificity in protein families using ancestral sequences
Burst After Duplication with Ancestral Sequence Predictions (BADASP) is a software package for identifying sites that may confer subfamily-specific biological functions in protein families following functional divergence of duplicated proteins. A given protein phylogeny is grouped into subfamilies based on orthology/paralogy relationships and/or user definitions. Ancestral sequences are then predicted from the sequence alignment and the functional specificity is calculated using variants of the Burst After Duplication method, which tests for radical amino acid substitutions following gene duplications that are subsequently conserved. Statistics are output along with subfamily groupings and ancestral sequences for an easy analysis with other packages
1367-4803
4190-4191
Edwards, Richard J.
9d25e74f-dc0d-455a-832c-5f363d864c43
Shields, D.C.
b1f999e2-db21-4bbf-bc5f-11d8f8917301
Edwards, Richard J.
9d25e74f-dc0d-455a-832c-5f363d864c43
Shields, D.C.
b1f999e2-db21-4bbf-bc5f-11d8f8917301

Edwards, Richard J. and Shields, D.C. (2005) BADASP: predicting functional specificity in protein families using ancestral sequences. Bioinformatics, 21 (22), 4190-4191. (doi:10.1093/bioinformatics/bti678).

Record type: Article

Abstract

Burst After Duplication with Ancestral Sequence Predictions (BADASP) is a software package for identifying sites that may confer subfamily-specific biological functions in protein families following functional divergence of duplicated proteins. A given protein phylogeny is grouped into subfamilies based on orthology/paralogy relationships and/or user definitions. Ancestral sequences are then predicted from the sequence alignment and the functional specificity is calculated using variants of the Burst After Duplication method, which tests for radical amino acid substitutions following gene duplications that are subsequently conserved. Statistics are output along with subfamily groupings and ancestral sequences for an easy analysis with other packages

Text
edwards_shields_2005.pdf - Version of Record
Restricted to Repository staff only

More information

Published date: November 2005

Identifiers

Local EPrints ID: 143475
URI: https://eprints.soton.ac.uk/id/eprint/143475
ISSN: 1367-4803
PURE UUID: 29517349-e376-45af-a0f6-5fce8bf980d5

Catalogue record

Date deposited: 30 Jun 2010 13:47
Last modified: 19 Jul 2019 23:33

Export record

Altmetrics

Contributors

Author: Richard J. Edwards
Author: D.C. Shields

University divisions

Download statistics

Downloads from ePrints over the past year. Other digital versions may also be available to download e.g. from the publisher's website.

View more statistics

Atom RSS 1.0 RSS 2.0

Contact ePrints Soton: eprints@soton.ac.uk

ePrints Soton supports OAI 2.0 with a base URL of https://eprints.soton.ac.uk/cgi/oai2

This repository has been built using EPrints software, developed at the University of Southampton, but available to everyone to use.

We use cookies to ensure that we give you the best experience on our website. If you continue without changing your settings, we will assume that you are happy to receive cookies on the University of Southampton website.

×