The plant ontology as a tool for comparative plant anatomy and genomic analyses.
The plant ontology as a tool for comparative plant anatomy and genomic analyses.
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DOI：
10.1093/pcp/pcs163
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发表时间：
2013-02
影响因子：
4.9
通讯作者：
Jaiswal P
中科院分区：
文献类型：
--
作者：
Cooper L;Walls RL;Elser J;Gandolfo MA;Stevenson DW;Smith B;Preece J;Athreya B;Mungall CJ;Rensing S;Hiss M;Lang D;Reski R;Berardini TZ;Li D;Huala E;Schaeffer M;Menda N;Arnaud E;Shrestha R;Yamazaki Y;Jaiswal P
植物本体论（po; http://www.plantontology.org/）是一种公开的协作努力，旨在开发和维护一个受控的，结构化的词汇（'本体学），以描述植物解剖学，形态和阶段植物的发展。只有大米，玉米和拟南芥，PO的范围已扩大，包括所有绿色植物。生物学本体提供的（通过同义词）以非英语语言（如日语和西班牙语）提供的翻译。 > 110,000个独特的数据对象，代表基因或基因模型，蛋白质，RNA，种质和定量性状位置（QTL），来自本文，我们专注于PO的植物解剖学分支，描述了组织原理，资源，资源，资源可用于用户，以及如何将PO集成到其他植物基因组数据库和Web门户网站中。结构和通知数据可用于发现叶（LFY）和萜烯合酶（TPS）基因同源物的表达模式。
The Plant Ontology (PO; http://www.plantontology.org/) is a publicly available, collaborative effort to develop and maintain a controlled, structured vocabulary (‘ontology’) of terms to describe plant anatomy, morphology and the stages of plant development. The goals of the PO are to link (annotate) gene expression and phenotype data to plant structures and stages of plant development, using the data model adopted by the Gene Ontology. From its original design covering only rice, maize and Arabidopsis, the scope of the PO has been expanded to include all green plants. The PO was the first multispecies anatomy ontology developed for the annotation of genes and phenotypes. Also, to our knowledge, it was one of the first biological ontologies that provides translations (via synonyms) in non-English languages such as Japanese and Spanish. As of Release #18 (July 2012), there are about 2.2 million annotations linking PO terms to >110,000 unique data objects representing genes or gene models, proteins, RNAs, germplasm and quantitative trait loci (QTLs) from 22 plant species. In this paper, we focus on the plant anatomical entity branch of the PO, describing the organizing principles, resources available to users and examples of how the PO is integrated into other plant genomics databases and web portals. We also provide two examples of comparative analyses, demonstrating how the ontology structure and PO-annotated data can be used to discover the patterns of expression of the LEAFY (LFY) and terpene synthase (TPS) gene homologs.
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基因本体论：2011年的增强。
影响因子：
14.9
作者：
Gene Ontology Consortium
通讯作者：
Gene Ontology Consortium
影响因子：
3.1
作者：
Aubourg, S;Lecharny, A;Bohlmann, J
通讯作者：
Bohlmann, J
影响因子：
4.9
作者：
Hamada, Kazuki;Hongo, Kohei;Yano, Kentaro
通讯作者：
Yano, Kentaro
影响因子：
3
作者：
Deegan (nee Clark), Jennifer I.;Dimmer, Emily C.;Mungall, Christopher J.
通讯作者：
Mungall, Christopher J.
影响因子：
4.9
作者：
Chujo, A;Zhang, Z;Kyozuka, J
通讯作者：
Kyozuka, J