Article (Scientific journals)
Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes.
Perez, Abel Gonzalez; Espinosa Angarica, Vladimir; Vasconcelos, Ana Tereza R. et al.
2007In Nucleic Acids Research, 35 (Database issue), p. 132-6
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Keywords :
TF-binding-sites prediction; regulatory network; regulon; gamma-proteobacteria
Abstract :
[en] 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.
Disciplines :
Biochemistry, biophysics & molecular biology
Author, co-author :
Perez, Abel Gonzalez
Espinosa Angarica, Vladimir ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
Vasconcelos, Ana Tereza R.
Collado-Vides, Julio
Language :
English
Title :
Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomes.
Publication date :
2007
Journal title :
Nucleic Acids Research
ISSN :
1362-4962
Publisher :
Oxford University Press, United Kingdom
Volume :
35
Issue :
Database issue
Pages :
D132-6
Peer reviewed :
Peer Reviewed verified by ORBi
Available on ORBilu :
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