Skip Navigation

This Article
Right arrow FREE Full Text (Print PDF) Freely available
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 (37)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Kolpakov, F. A.
Right arrow Articles by Kolchanov, N. A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Kolpakov, F. A.
Right arrow Articles by Kolchanov, N. A.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Bioinformatics, Vol 14, 529-537, Copyright © 1998 by Oxford University Press

ARTICLES

GeneNet: a gene network database and its automated visualization

FA Kolpakov, EA Ananko, GB Kolesov and NA Kolchanov
Laboratory of Theoretical Molecular Genetics, Institute of Cytology & Genetics, 633090, Lavrentieva 10, Novosibirsk, Russia. fedor@bionet.nsc.ru

MOTIVATION: Gene networks that provide the regulation of physiological processes are the basic feature of organisms. Information regarding the regulation of gene expression and signal transduction pathways is increasing rapidly. However, the information is hard to formalize and systematize. Ways and means for automated visualization of the gene networks based on their formalized description are needed. RESULTS: The object-oriented database GeneNet and the software for its automated visualization have been developed. The main principles of a formalized description of the gene network have been worked out. Antiviral response and erythropoiesis are provided as examples to show how this is achieved. The GeneNet graphical user interface written in Java provides automated generation of the gene network diagrams and allows visualization and exploration of the GeneNet database through the Internet. A system of filters allows the selection of particular components of the network for visualization. AVAILABILITY: The GeneNet database and its graphical user interface are available at http://wwwmgs.bionet.nsc.ru/systems/MGL/GeneN et/ CONTACT: fedor@bionet.nsc.ru
Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
Y. Tao, C. Friedman, and Y. A. Lussier
Visualizing information across multidimensional post-genomic structured and textual databases
Bioinformatics, April 15, 2005; 21(8): 1659 - 1667.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
E. A. Ananko, N. L. Podkolodny, I. L. Stepanenko, O. A. Podkolodnaya, D. A. Rasskazov, D. S. Miginsky, V. A. Likhoshvai, A. V. Ratushny, N. N. Podkolodnaya, and N. A. Kolchanov
GeneNet in 2005
Nucleic Acids Res., January 1, 2005; 33(suppl_1): D425 - D427.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
A. P. Lifanov, V. J. Makeev, A. G. Nazina, and D. A. Papatsenko
Homotypic Regulatory Clusters in Drosophila
Genome Res., April 1, 2003; 13(4): 579 - 588.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
E. A. Ananko, N. L. Podkolodny, I. L. Stepanenko, E. V. Ignatieva, O. A. Podkolodnaya, and N. A. Kolchanov
GeneNet: a database on structure and functional organisation of gene networks
Nucleic Acids Res., January 1, 2002; 30(1): 398 - 401.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
N. A. Kolchanov, O. A. Podkolodnaya, E. A. Ananko, E. V. Ignatieva, I. L. Stepanenko, O. V. Kel-Margoulis, A. E. Kel, T. I. Merkulova, T. N. Goryachkovskaya, T. V. Busygina, et al.
Transcription Regulatory Regions Database (TRRD): its status in 2000
Nucleic Acids Res., January 1, 2000; 28(1): 298 - 301.
[Abstract] [Full Text] [PDF]


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.