International Journal of Genomics

International Journal of Genomics / 2002 / Article

Conference Review | Open Access

Volume 3 |Article ID 432674 | https://doi.org/10.1002/cfg.156

Pankaj Jaiswal, Doreen Ware, Junjian Ni, Kuan Chang, Wei Zhao, Steven Schmidt, Xiaokang Pan, Kenneth Clark, Leonid Teytelman, Samuel Cartinhour, Lincoln Stein, Susan McCouch, "Gramene: Development and Integration of Trait and Gene Ontologies for Rice", International Journal of Genomics, vol. 3, Article ID 432674, 5 pages, 2002. https://doi.org/10.1002/cfg.156

Gramene: Development and Integration of Trait and Gene Ontologies for Rice

Received13 Feb 2002
Accepted14 Feb 2002

Abstract

Gramene (http://www.gramene.org/) is a comparative genome database for cereal crops and a community resource for rice. We are populating and curating Gramene with annotated rice (Oryza sativa) genomic sequence data and associated biological information including molecular markers, mutants, phenotypes, polymorphisms and Quantitative Trait Loci (QTL). In order to support queries across various data sets as well as across external databases, Gramene will employ three related controlled vocabularies. The specific goal of Gramene is, first to provide a Trait Ontology (TO) that can be used across the cereal crops to facilitate phenotypic comparisons both within and between the genera. Second, a vocabulary for plant anatomy terms, the Plant Ontology (PO) will facilitate the curation of morphological and anatomical feature information with respect to expression, localization of genes and gene products and the affected plant parts in a phenotype. The TO and PO are both in the early stages of development in collaboration with the International Rice Research Institute, TAIR and MaizeDB as part of the Plant Ontology Consortium. Finally, as part of another consortium comprising macromolecular databases from other model organisms, the Gene Ontology Consortium, we are annotating the confirmed and predicted protein entries from rice using both electronic and manual curation.

Copyright © 2002 Hindawi Publishing Corporation. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


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