|
Article information
2000 , Volume 5, Special issue, p.32-40
Kolchanov N.A., Podkolodny N.L., Ananko E.A., Podkolodnaya O.A., Ignatieva E.V., Merkulova T.I., Goryachkovsky T.N., Stepanenko I.L., Kel A.E., Kel-Margoulis O.V., Naumochkin A.N., Grigorovich D.A., Lokhova I.V., Romashchenko A.G.
Transcription regulatory regions database (TRRD): new possibilities
Motivation Most of specialized databases accumulating information on gene transcription in eukaryotes deal with particular aspects of this problem. In the frameworks of these databases, it is impossible to reveal the mechanisms of integral transcription regulation. For accumulation of experimental data on structure and functional organization of extended regulatory regions influencing gene transcription in eukaryotes, a database TRRD was developed. It may serve as a basis for integration of informational resources devoted to studying molecular mechanisms of gene transcription. The current release, TRRD 4.2, comprises the description of more than 850 genes, over 3800 expression patterns, about 1200 regulatory units and more than 4000 transcription factor binding sites. Approximately 2800 scientific publications were annotated. TRRD is installed under SRS (Sequence Retrieval System) that provides flexible and effective possibilities for making interactive queries to this database and its integration with other databases. The TRRD database is represented in a form of five tables containing general information on a gene, the structure of its regulatory regions, gene expression peculiarities, data on the binding sites of transcription factors, and information about these factors.
Author(s):
Kolchanov N.A.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
Podkolodny N.L.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Ananko E.A.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Podkolodnaya O.A.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Ignatieva E.V.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Merkulova T.I.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Goryachkovsky T.N.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Stepanenko I.L.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Kel A.E.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Kel-Margoulis O.V.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Naumochkin A.N.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Grigorovich D.A.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Lokhova I.V.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Romashchenko A.G.
Office: Institute of Cytology and Genetics SB RAS
Address: Russia, Novosibirsk
E-mail: kol@bionet.nsc.ru
Bibliography link:
Kolchanov N.A., Podkolodny N.L., Ananko E.A., Podkolodnaya O.A., Ignatieva E.V., Merkulova T.I., Goryachkovsky T.N., Stepanenko I.L., Kel A.E., Kel-Margoulis O.V., Naumochkin A.N., Grigorovich D.A., Lokhova I.V., Romashchenko A.G. Transcription regulatory regions database (TRRD): new possibilities // Computational technologies. 2000. V. 5. The special issue is devoted to the 10-th anniversary of the Laboratory of Theoretical Genetics of the Institute of Cytology and Genetics SB RAS. P. 32-40
|
