Skip Navigation

Bioinformatics 2006 22(19):2439-2440; doi:10.1093/bioinformatics/btl404
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow Comments: Submit a response
Right arrow Alert me when this article is cited
Right arrow Alert me when Comments are posted
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Armougom, F.
Right arrow Articles by Notredame, C.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Armougom, F.
Right arrow Articles by Notredame, C.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

APDB: a web server to evaluate the accuracy of sequence alignments using structural information

Fabrice Armougom 1, Olivier Poirot 1, Sébastien Moretti 1, Desmond G. Higgins 2, Phillip Bucher 3, Vladimir Keduas 1 and Cedric Notredame 1,*

1 CNRS UPR2589, Institute for Structural Biology and Microbiology (IBSM), Parc Scientifique de Luminy 163 Avenue de Luminy, FR-13288, Marseille cedex 09, France
2 The Conway Institute of Biomolecular and Biomedical Research, University College Dublin Ireland
3 Institut Suisse de Recherche et d'Experimentation sur le Cancer, Ch. des Boveresses 155 CH-1066 Epalinges Switzerland

*To whom correspondence should be addressed.

Summary: The APDB webserver uses structural information to evaluate the alignment of sequences with known structures. It returns a score correlated to the overall alignment accuracy as well as a local evaluation. Any sequence alignment can be analyzed with APDB provided it includes at least two proteins with known structures. Sequences without a known structure are simply ignored and do not contribute to the scoring procedure.

Availability: APDB is part of the T-Coffee suite of tools for alignment analysis, it is available on www.tcoffee.org. A standalone version of the package is also available as a freeware open source from the same address.

Contact: cedric.notredame{at}europe.com

Received on March 31, 2006; revised on June 17, 2006; accepted on July 21, 2006

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.