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AGNS—A Database on Expression of Arabidopsis Genes

Omelyanchuk, N. and Mironova, V. and Poplavsky, A. and Podkoldny, N. and Kolchanov, N. and Mjolsness, E. and Meyerowitz, E. (2006) AGNS—A Database on Expression of Arabidopsis Genes. In: Bioinformatics of Genome Regulation and Structure II. Springer , New York, NY, pp. 433-442. ISBN 978-0-387-29450-6. https://resolver.caltech.edu/CaltechAUTHORS:20161207-130209103

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Abstract

AGNS (Arabidopsis GeneNet supplementary database) is an Internet-available resource that provides access to description of the functions of the known Arabidopsis genes at various levels—the levels of mRNA, protein, cell, tissue, and ultimately at the levels of organs and the organism in both wild type and mutant backgrounds. AGNS annotates published papers on gene expression and function and by this way integrates, systematizes, and classifies this heterogeneous, disparate, and scattered information. AGNS consists of three databases—the Expression Database (ED), the Phenotype Database (PD), and the Reference Database (RD)—and two controlled vocabularies. ED describes gene expression in wild type, mutants, and transgenic plants; PD contains information on phenotypic abnormalities in mutant and transgenic plants; and RD includes references to the papers and description of plant growth conditions with an indication of the ecotypes used as control in the experiments. Detailed controlled vocabularies on growth stages and morphology were developed around the annotated data. AGNS makes possible the search for genes expressed in particular organs, at particular stages, for genes whose expression is altered in particular mutants, for alleles causing particular phenotypic abnormalities, and for pleiotropic effect of particular mutations. Navigation table and search tools are used to browse the informational content of the database and controlled vocabularies.


Item Type:Book Section
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1007/0-387-29455-4_41DOIArticle
http://link.springer.com/chapter/10.1007%2F0-387-29455-4_41PublisherArticle
ORCID:
AuthorORCID
Meyerowitz, E.0000-0003-4798-5153
Additional Information:© 2006 Springer Science+Business Media, Inc. The work was supported in part by the Russian Foundation for Basic Research (grants Nos. 03-04-48506, 05-07-98012 and 03-04-48469), Presidium of the Russian Academy of Sciences (grant No. 10.4), Siberian Branch of the Russian Academy of Sciences (Integration project No. 119), and the US National Science Foundation (FIBR EF-0330786 Development Modeling and Bioinformatics).
Funders:
Funding AgencyGrant Number
Russian Foundation for Basic Research03-04-48506
Russian Foundation for Basic Research05-07-98012
Russian Foundation for Basic Research03-04-48469
Presidium of the Russian Academy of Sciences10.4
Russian Academy of Sciences119
NSFEF-0330786
Subject Keywords:Arabidopsis; gene expression; phenotype; database – mutant; transgenic plants
Record Number:CaltechAUTHORS:20161207-130209103
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20161207-130209103
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:72632
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:07 Dec 2016 21:10
Last Modified:03 Oct 2019 16:19

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