Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database information

SeedGenes (The Arabidopsis SeedGenes Project.)

General information

Description: The SeedGenes database (http://www.seedgenes.org) presents molecular and phenotypic information on essential, non-redundant genes of Arabidopsis that give a seed phenotype when disrupted by mutation. Experimental details are synthesized for efficient use by the community and organized into two major sections in the database, one dealing with genes and the other with mutant alleles. The database can be queried for detailed information on a single gene to create a SeedGenes Profile.
Year founded: 2002
Last update: 2010
Version: 8
Accessibility:
Manual:
Accessible
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Country/Region: United States
Data type:
DNA
Data object:
Database category:
Major organism:
Keywords:

Contact information

University/Institution: Oklahoma State University
Address: Department of Botany, Oklahoma State University, Stillwater, OK 74078, USA Virginia Bioinformatics Institute, Blacksburg, VA 24061, USA.
City: Blacksburg
Province/State: VA
Country/Region: United States
Contact name (PI/Team): David Meinke
Contact email (PI/Helpdesk): meinke@okstate.edu

Related Database

Record metadata

Created on: 2018-02-09
Curated by:
Mengyu Pan [2018-09-21]
Qi Wang [2018-02-24]
zhang yang [2018-02-09]

Ranking

All databases:
601/4549 (86.81%)
Genotype phenotype and variation:
75/611 (87.889%)
601
Total Rank
198
Citations
11.647
z-index

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Publications

18684657
Identifying essential genes in Arabidopsis thaliana. [PMID: 18684657]
Meinke D, Muralla R, Sweeney C, Dickerman A.

Eight years after publication of the Arabidopsis genome sequence and two years before completing the first phase of an international effort to characterize the function of every Arabidopsis gene, plant biologists remain unable to provide a definitive answer to the following basic question: what is the minimal gene set required for normal growth and development? The purpose of this review is to summarize different strategies employed to identify essential genes in Arabidopsis, an important component of the minimal gene set in plants, to present an overview of the datasets and specific genes identified to date, and to discuss the prospects for future saturation of this important class of genes. The long-term goal of this collaborative effort is to facilitate basic research in plant biology and complement ongoing research with other model organisms.

Trends Plant Sci. 2008:13(9) | 114 Citations (from Europe PMC, 2020-02-08)
12519955
The Arabidopsis SeedGenes Project. [PMID: 12519955]
Tzafrir I, Dickerman A, Brazhnik O, Nguyen Q, McElver J, Frye C, Patton D, Meinke D.

The SeedGenes database (http://www.seedgenes.org) presents molecular and phenotypic information on essential, non-redundant genes of Arabidopsis that give a seed phenotype when disrupted by mutation. Experimental details are synthesized for efficient use by the community and organized into two major sections in the database, one dealing with genes and the other with mutant alleles. The database can be queried for detailed information on a single gene to create a SeedGenes Profile. Queries can also generate lists of genes or mutants that fit specified criteria. The long-term goal is to establish a complete collection of Arabidopsis genes that give a knockout phenotype. This information is needed to focus attention on genes with important cellular functions in a model plant and to assess from a genetic perspective the extent of functional redundancy in the Arabidopsis genome.

Nucleic Acids Res. 2003:31(1) | 84 Citations (from Europe PMC, 2020-02-08)