Ontology searching and browsing at the Rat Genome Database.
Ontology searching and browsing at the Rat Genome Database.
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DOI：
10.1093/database/bas016
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发表时间：
2012
期刊：
影响因子：
--
通讯作者：
Jacob HJ
中科院分区：
文献类型：
--
作者：
Laulederkind SJ;Tutaj M;Shimoyama M;Hayman GT;Lowry TF;Nigam R;Petri V;Smith JR;Wang SJ;de Pons J;Dwinell MR;Jacob HJ
大鼠基因组数据库（Rat Genome Database，RGD）是大鼠基因组和遗传数据的首要存储库，目前拥有超过40 000个大鼠基因记录，以及人类和小鼠直系同源物，1857个大鼠和1912个人类数量性状位点（Quantitative Trait Loci，QTL）和2347个大鼠品系。为这些数据对象策划的生物信息包括疾病关联、表型、途径、分子功能、生物过程和细胞成分。RGD使用十几种不同的本体来标准化基因、QTL和菌株的注释信息。这意味着可以花费大量时间来搜索和浏览本体，以获得管理和挖掘数据所需的适当术语。RGD已经升级了其本体术语搜索，使其更加通用和强大。术语搜索结果连接到术语浏览器，因此用户可以通过查看父术语和子术语来微调搜索。大多数公开可用的术语浏览器以可扩展的树格式显示术语的层次结构。RGD已经用一种“driller”类型的浏览器取代了旧的树浏览器格式，这种浏览器允许更快地在术语分支中上下钻取，这已经通过测试得到了证实。RGD本体报告页面也已升级。扩展的功能允许在如何显示注释以及显示注释的哪些子集方面有更多选择。新的本体搜索、浏览器和报告功能旨在增强手动数据管理和手动数据提取。数据库URL：http://rgd.mcw.edu/rgdweb/ontology/search.html
The Rat Genome Database (RGD) is the premier repository of rat genomic and genetic data and currently houses over 40 000 rat gene records, as well as human and mouse orthologs, 1857 rat and 1912 human quantitative trait loci (QTLs) and 2347 rat strains. Biological information curated for these data objects includes disease associations, phenotypes, pathways, molecular functions, biological processes and cellular components. RGD uses more than a dozen different ontologies to standardize annotation information for genes, QTLs and strains. That means a lot of time can be spent searching and browsing ontologies for the appropriate terms needed both for curating and mining the data. RGD has upgraded its ontology term search to make it more versatile and more robust. A term search result is connected to a term browser so the user can fine-tune the search by viewing parent and children terms. Most publicly available term browsers display a hierarchical organization of terms in an expandable tree format. RGD has replaced its old tree browser format with a ‘driller’ type of browser that allows quicker drilling up and down through the term branches, which has been confirmed by testing. The RGD ontology report pages have also been upgraded. Expanded functionality allows more choice in how annotations are displayed and what subsets of annotations are displayed. The new ontology search, browser and report features have been designed to enhance both manual data curation and manual data extraction. Database URL: http://rgd.mcw.edu/rgdweb/ontology/search.html
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影响因子：
12.3
作者：
Smith CL;Goldsmith CA;Eppig JT
通讯作者：
Eppig JT
影响因子：
4.3
作者：
Shimoyama, Mary;Hayman, G. Thomas;Jacob, Howard J.
通讯作者：
Jacob, Howard J.
影响因子：
14.9
作者：
Gene Ontology Consortium
通讯作者：
Gene Ontology Consortium
影响因子：
2.7
作者：
Khodiyar VK;Hill DP;Howe D;Berardini TZ;Tweedie S;Talmud PJ;Breckenridge R;Bhattarcharya S;Riley P;Scambler P;Lovering RC
通讯作者：
Lovering RC