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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

 

License

 

 

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.