Skip Navigation


Bioinformatics Advance Access originally published online on June 9, 2006
Bioinformatics 2006 22(17):2175-2177; doi:10.1093/bioinformatics/btl287
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow supplementary
Right arrow All Versions of this Article:
22/17/2175    most recent
btl287v1
Right arrow Alert me when this article is cited
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 arrow Search for citing articles in:
ISI Web of Science (2)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Liang, Z.
Right arrow Articles by Niu, L.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Liang, Z.
Right arrow Articles by Niu, L.
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

NetAlign: a web-based tool for comparison of protein interaction networks

Zhi Liang 1,2,{dagger}, Meng Xu 1,2,{dagger}, Maikun Teng 1,2,* and Liwen Niu 1,2,*

1 Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science & Technology of China 96 Jinzhai Road, Hefei, Anhui 230027, China
2 Key Laboratory of Structural Biology, Chinese Academy of Sciences 96 Jinzhai Road, Hefei, Anhui 230027, China

*To whom correspondence should be addressed.

Summary: NetAlign is a web-based tool designed to enable comparative analysis of protein interaction networks (PINs). NetAlign compares a query PIN with a target PIN by combining interaction topology and sequence similarity to identify conserved network substructures (CoNSs), which may derive from a common ancestor and disclose conserved topological organization of interactions in evolution. To exemplify the application of NetAlign, we perform two genome-scale comparisons with (1) the Escherichia coli PIN against the Helicobacter pylori PIN and (2) the Saccharomyces cerevisiae PIN against the Caenorrhabditis elegans PIN. Many of the identified CoNSs correspond to known complexes; therefore, cross-species PIN comparison provides a way for discovery of conserved modules. In addition, based on the species-to-species differences in CoNSs, we reformulate the problems of protein–protein interaction (PPI) prediction and species divergence from a network perspective.

Availability: http://www1.ustc.edu.cn/lab/pcrystal/NetAlign

Supplementary Data: Supplementary data are available at Bioinformatics online.

Contact: mkteng{at}ustc.edu.cn, lwniu{at}ustc.edu.cn

Received on April 12, 2006; accepted on May 16, 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.