WormBase 2012: more genomes, more data, new website.
WormBase 2012: more genomes, more data, new website.
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DOI：
10.1093/nar/gkr954
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发表时间：
2012-01
影响因子：
14.9
通讯作者：
Sternberg PW
中科院分区：
文献类型：
--
作者：
Yook K;Harris TW;Bieri T;Cabunoc A;Chan J;Chen WJ;Davis P;de la Cruz N;Duong A;Fang R;Ganesan U;Grove C;Howe K;Kadam S;Kishore R;Lee R;Li Y;Muller HM;Nakamura C;Nash B;Ozersky P;Paulini M;Raciti D;Rangarajan A;Schindelman G;Shi X;Schwarz EM;Ann Tuli M;Van Auken K;Wang D;Wang X;Williams G;Hodgkin J;Berriman M;Durbin R;Kersey P;Spieth J;Stein L;Sternberg PW
自2000年发布以来，WormBase（www.wormbase.org）已经从一个专注于单一物种并为专门研究社区服务的小型资源发展成为现在涵盖更广泛的生物医学和农业研究领域所必需的15个物种的资源。为了提高策展率，我们自动识别科学文献中的关键数据，并使用类似的方法进行数据提取。为了方便访问数据，我们正在与期刊合作，将研究出版物中的实体链接到其在WormBase的报告页面。为了促进发现，我们增加了新的数据视图，整合了大规模数据集，并扩展了对人类疾病模型的描述。最后，我们对WormBase网站进行了重大改革，以进行公开beta测试。新网站旨在平衡复杂性和可用性，具有物种不可知性、高度可定制性和交互性。临时用户和开发人员都将能够利用公共的RESTful应用程序编程接口（API）来生成自定义数据挖掘解决方案和对网站的扩展。我们报告我们的数据库的增长和我们的工作，以跟上不断增长的数据需求，努力预测用户的需求和新的合作与更大的科学界。
Since its release in 2000, WormBase (http://www.wormbase.org) has grown from a small resource focusing on a single species and serving a dedicated research community, to one now spanning 15 species essential to the broader biomedical and agricultural research fields. To enhance the rate of curation, we have automated the identification of key data in the scientific literature and use similar methodology for data extraction. To ease access to the data, we are collaborating with journals to link entities in research publications to their report pages at WormBase. To facilitate discovery, we have added new views of the data, integrated large-scale datasets and expanded descriptions of models for human disease. Finally, we have introduced a dramatic overhaul of the WormBase website for public beta testing. Designed to balance complexity and usability, the new site is species-agnostic, highly customizable, and interactive. Casual users and developers alike will be able to leverage the public RESTful application programming interface (API) to generate custom data mining solutions and extensions to the site. We report on the growth of our database and on our work in keeping pace with the growing demand for data, efforts to anticipate the requirements of users and new collaborations with the larger science community.
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