D'Eustachio Peter
Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, 550 First Avenue, MSB 390, New York, NY 10016, USA.
Chem Biol. 2013 May 23;20(5):629-35. doi: 10.1016/j.chembiol.2013.03.018.
Pathway databases are a means to systematically associate proteins with their functions and link them into networks that describe the reaction space of an organism. Here, the Reactome Knowledgebase provides a convenient example to illustrate strategies used to assemble such a reaction space based on manually curated experimental data, approaches to semiautomated extension of these manual annotations to infer annotations for a large fraction of a species' proteins, and the use of networks of functional annotations to infer pathway relationships among variant proteins that have been associated with disease risk through genome-wide surveys and resequencing studies of tumors.
通路数据库是一种将蛋白质与其功能进行系统关联并将它们链接成描述生物体反应空间的网络的手段。在此，Reactome知识库提供了一个方便的例子，用以说明基于人工整理的实验数据来构建这样一个反应空间所使用的策略、将这些人工注释进行半自动扩展以推断一个物种大部分蛋白质的注释的方法，以及利用功能注释网络来推断通过全基因组调查和肿瘤重测序研究与疾病风险相关的变异蛋白质之间的通路关系。
