Paz Arnon, Brownstein Zippora, Ber Yaara, Bialik Shani, David Eyal, Sagir Dorit, Ulitsky Igor, Elkon Ran, Kimchi Adi, Avraham Karen B, Shiloh Yosef, Shamir Ron
Department of Human Molecular Genetics and Biochemistry, Sackler School of Medicine, Tel Aviv University, Tel Aviv 69978, Israel.
Nucleic Acids Res. 2011 Jan;39(Database issue):D793-9. doi: 10.1093/nar/gkq1167. Epub 2010 Nov 19.
The rapid accumulation of knowledge on biological signaling pathways and their regulatory mechanisms has highlighted the need for specific repositories that can store, organize and allow retrieval of pathway information in a way that will be useful for the research community. SPIKE (Signaling Pathways Integrated Knowledge Engine; http://www.cs.tau.ac.il/&~spike/) is a database for achieving this goal, containing highly curated interactions for particular human pathways, along with literature-referenced information on the nature of each interaction. To make database population and pathway comprehension straightforward, a simple yet informative data model is used, and pathways are laid out as maps that reflect the curator’s understanding and make the utilization of the pathways easy. The database currently focuses primarily on pathways describing DNA damage response, cell cycle, programmed cell death and hearing related pathways. Pathways are regularly updated, and additional pathways are gradually added. The complete database and the individual maps are freely exportable in several formats. The database is accompanied by a stand-alone software tool for analysis and dynamic visualization of pathways.
关于生物信号通路及其调控机制的知识迅速积累，凸显了建立特定知识库的必要性，这些知识库能够以对研究界有用的方式存储、组织并允许检索通路信息。SPIKE（信号通路综合知识引擎；http://www.cs.tau.ac.il/&~spike/）是一个旨在实现这一目标的数据库，它包含特定人类通路的高度精确的相互作用，以及关于每种相互作用性质的文献参考信息。为了使数据库填充和通路理解变得直接明了，使用了一个简单但信息丰富的数据模型，并且通路以反映编辑者理解且便于通路利用的图谱形式呈现。该数据库目前主要关注描述DNA损伤反应、细胞周期、程序性细胞死亡和听力相关通路的通路。通路会定期更新，并且会逐渐添加其他通路。完整的数据库和各个图谱可以以多种格式免费导出。该数据库还附带一个用于通路分析和动态可视化的独立软件工具。
