Conference devoted to the 90th anniversary of Alexei A. Lyapunov

Akademgorodok, Novosibirsk, Russia, October 8-11, 2001,
(state registration number 0320300064)

Abstracts

Information biology

Transcription regulatory regions database (TRRD)

Ignatieva E.V., Podkolodnaya O.A., Ananko E.A., Stepanenko I.L., Merkulova T.I., Podkolodny N.L., Naumochkin A.N., Korostishevskaya I.M., Romashchenko A.G., Kolchanov N.A.

Institute of Cytology and Genetics SB RAS (Novosibirsk)

Transcription Regulatory Regions Database (TRRD) is maintained at the Institute of Cytology and Genetics SB RAS (Novosibirsk, Russia) since 1993.

TRRD accumulates experimental information on the structure-function features of regulatory regions of eukaryotic genes. To input the information into the database, experts in biology annotate publications on the relevant experimental data.

Each TRRD entry corresponds to a particular gene and contains descriptions of several hierarchical levels of transcription regulation, including (1) transcription factor binding sites, (2) regulatory units (promoters, enhancers, and silencers), and (3) regulatory regions (3' and 5' regulatory regions, exons, and introns). Description of each regulatory level may contain both its structural characteristics (sequence, localization, etc.) and functional properties (effect on transcription activity of a gene; cell-cycle phase or ontogenetic stage specificity; cell type, tissue, or organ specificity, etc.).

In the database, the data on regulatory regions of a gene are supplemented with (1) descriptions of transcription factors used in the experiments on either binding capacities or functional activities of the corresponding sites, (2) patterns of regulation of gene expression, and (3) references to original publications.

TRRD is a module of GeneExpress system.

It is available at http://wwwmgs.bionet.nsc.ru/mgs/gnw/trrd/

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