Skip Navigation



Nucleic Acids Research Advance Access published online on November 6, 2006
Nucleic Acids Research, doi:10.1093/nar/gkl800
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (1010K) Freely available
Right arrow Screen PDF (213K) Freely available
Right arrow Supplementary Material
Right arrowOA All Versions of this Article:
35/suppl_1/D132    most recent
gkl800v1
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 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 Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Pérez, A. G.
Right arrow Articles by Collado-Vides, J.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Pérez, A. G.
Right arrow Articles by Collado-Vides, J.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes

Abel González Pérez, Vladimir Espinosa Angarica, Ana Tereza R. Vasconcelos1,* and Julio Collado-Vides2

National Bioinformatics Center Cuba 1 National Laboratory for Scientific Computing Brazil 2 Center of Genomics Mexico

*To whom correspondence should be addressed at Bioinformatics Laboratory-LABINFO National Laboratory of Scientfic Computation Av. Getulio Vargas, 333, Quitandinha ZC: 25651-075 Petrópolis Rio de Janeiro, Brazil. Tel: +55 24 2233 6065; Fax: +55 24 2231 5595; Email: atrv{at}lncc.br

Received August 16, 2006. Revised September 20, 2006. Accepted October 2, 2006.

The version 2.0 of Tractor_DB is now accessible at its three international mirrors: www.bioinfo.cu/Tractor_DB, www.tractor.lncc.br and http://www.ccg.unam.mx/tractorDB. This database contains a collection of computationally predicted Transcription Factors' binding sites in gamma-proteobacterial genomes. These data should aid researchers in the design of microarray experiments and the interpretation of their results. They should also facilitate studies of Comparative Genomics of the regulatory networks of this group of organisms. In this paper we describe the main improvements incorporated to the database in the past year and a half which include incorporating information on the regulatory networks of 13—increasing to 30—new gamma-proteobacteria and developing a new computational strategy to complement the putative sites identified by the original weight matrix-based approach. We have also added dynamically generated navigation tabs to the navigation interfaces. Moreover, we developed a new interface that allows users to directly retrieve information on the conservation of regulatory interactions in the 30 genomes included in the database by navigating a map that represents a core of the known Escherichia coli regulatory network.


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
 Nucleic Acids ResHome page
J. Klein, S. Leupold, R. Munch, C. Pommerenke, T. Johl, U. Karst, L. Jansch, D. Jahn, and I. Retter
ProdoNet: identification and visualization of prokaryotic gene regulatory and metabolic networks
Nucleic Acids Res., April 25, 2008; (2008) gkn217v1.
[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.