IMPACT: Integrated Multiprogram Platform for Analyses in ConTest

• Type: Article in International Scientific Journal
• Date: 2011

Authors

Emanuel Maldonado (Author) Other; Julien Y Dutheil (Author) Other; Rute R Da Fonseca (Author) Other; Vitor Vasconcelos (Author) FCUP; Agostinho Antunes (Author) FCUP

Journal

Title: Journal of Heredity

Vol. 102

Pages: 366-369

ISSN: 0022-1503

Publisher: Oxford University Press

Indexing

ISI Web of Knowledge - 2 Citations

Scopus - 2 Citations

Scientific classification

FOS: Natural sciences > Earth and related Environmental sciences

Other information

Authenticus ID: P-002-S3C

DOI: 10.1093/jhered/esr003

Abstract (EN): In this paper, we introduce a new Graphical User Interface that estimates evolutionary rates on protein sequences by assessing changes in biochemical constraints. We describe IMPACT, a platform-independent (tested in Linux, Windows, and MacOS) easy to install software written in Java. IMPACT integrates the use of a built-in multiple sequence alignment editor, with programs that perform phylogenetic and protein structure analyses (ConTest, PhyML, ATV, and Jmol) allowing the user to quickly and efficiently perform evolutionary analyses on protein sequences, including the detection of selection (negative and positive) signatures at the amino acid scale, which can provide fundamental insight about species evolution and ecological fitness. IMPACT provides the user with a working platform that combines a number of bioinformatics tools and utilities in one place, transferring information directly among the various programs and therefore increasing the overall performance of evolutionary analyses on proteins.

Language: English

Type (Professor's evaluation): Scientific

No. of pages: 4