Nucleic Acids Research, 2004, Vol. 32, Database issue D303-D306
© 2004 Oxford University Press
RegulonDB (version 4.0): transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12
Program of Computational Genomics, CIFN, UNAM. A.P. 565-A Cuernavaca, Morelos 62100, Mexico
*To whom correspondence should be addressed. Tel: +527 77 313 2063; Fax +527 77 317 5581; Email: ecoli-t1{at}cifn.unam.mx
The authors wish it to be known that, in theirr opinion, the first five auhtors should be regarded as joint First Authors
RegulonDB is the primary database of the major international maintained curation of original literature with experimental knowledge about the elements and interactions of the network of transcriptional regulation in Escherichia coli K-12. This includes mechanistic information about operon organization and their decomposition into transcription units (TUs), promoters and their 
type, binding sites of specific transcriptional regulators (TRs), their organization into ‘regulatory phrases’, active and inactive conformations of TRs, as well as terminators and ribosome binding sites. The database is complemented with clearly marked computational predictions of TUs, promoters and binding sites of TRs. The current version has been expanded to include information beyond specific mechanisms aimed at gathering different growth conditions and the associated induced and/or repressed genes. RegulonDB is now linked with Swiss-Prot, with microarray databases, and with a suite of programs to analyze and visualize microarray experiments. We provide a summary of the biological knowledge contained in RegulonDB and describe the major changes in the design of the database. RegulonDB can be accessed on the web at the URL: http://www.cifn.unam.mx/Computational_Biology/regulondb/.
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