Title

NASCENT: An automatic protein interaction network generation tool for non-model organisms

Authors

Daniel Banky ^{1, 2}, Rafael Ordog ^{1, 2}, Vince Grolmusz ^{1, 2,*}

Affiliation

¹Protein Information Technology Group, Eotvos University, H-1117 Budapest, Hungary, ²Uratim Ltd. H-4400 Nyiregyhaza, Hungary

Email

grolmusz@cs.elte.hu

Article Type

Web Server

Date

received March 19, 2009; revised April 02, 2009; accepted April 07, 2009; published April 24, 2009

Abstract

Large quantity of reliable protein interaction data are available for model organisms in public depositories (e.g., MINT, DIP, HPRD, INTERACT). Most data correspond to experiments with the proteins of Saccharomyces cerevisiae, Drosophila melanogaster, Homo sapiens, Caenorhabditis elegans, Escherichia coli and Mus musculus. For other important organisms the data availability is poor or non-existent. Here we present NASCENT, a completely automatic web-based tool and also a downloadable Java program, capable of modeling and generating protein interaction networks even for non-model organisms. The tool performs protein interaction network modeling through gene-name mapping, and outputs the resulting network in graphical form and also in computer-readable graph-forms, directly applicable by popular network modeling software.

Keywords

network; tool; protein; interaction; model

Availability

http://nascent.pitgroup.org

Citation

Grolmusz et al, Bioinformation 3(8): 361-363 (2009)

Edited by

P. Kangueane

ISSN

0973-2063

Publisher

Biomedical Informatics

Copyright

Publisher

Copyright Transfer Agreement

The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.

License

This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.