Navarro J Daniel, Talreja Naveen, Peri Suraj, Vrushabendra B M, Rashmi B P, Padma N, Surendranath Vineeth, Jonnalagadda Chandra Kiran, Kousthub P S, Deshpande Nandan, Shanker K, Pandey Akhilesh
McKusick-Nathans Institute of Genetic Medicine and the Department of Biological Chemistry, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA.
BMC Bioinformatics. 2004 Apr 20;5:43. doi: 10.1186/1471-2105-5-43.
The explosion in biological information creates the need for databases that are easy to develop, easy to maintain and can be easily manipulated by annotators who are most likely to be biologists. However, deployment of scalable and extensible databases is not an easy task and generally requires substantial expertise in database development.
BioBuilder is a Zope-based software tool that was developed to facilitate intuitive creation of protein databases. Protein data can be entered and annotated through web forms along with the flexibility to add customized annotation features to protein entries. A built-in review system permits a global team of scientists to coordinate their annotation efforts. We have already used BioBuilder to develop Human Protein Reference Database http://www.hprd.org, a comprehensive annotated repository of the human proteome. The data can be exported in the extensible markup language (XML) format, which is rapidly becoming as the standard format for data exchange.
As the proteomic data for several organisms begins to accumulate, BioBuilder will prove to be an invaluable platform for functional annotation and development of customizable protein centric databases. BioBuilder is open source and is available under the terms of LGPL.
生物信息的爆炸式增长使得人们需要易于开发、维护且便于生物学家等注释人员操作的数据库。然而，部署可扩展和可延伸的数据库并非易事，通常需要数据库开发方面的大量专业知识。
BioBuilder是一个基于Zope的软件工具，旨在促进蛋白质数据库的直观创建。蛋白质数据可通过网络表单输入并进行注释，同时还能灵活地为蛋白质条目添加定制注释功能。内置的审核系统使全球科学家团队能够协调他们的注释工作。我们已经使用BioBuilder开发了人类蛋白质参考数据库（http://www.hprd.org），这是一个全面注释的人类蛋白质组知识库。数据可以以可扩展标记语言（XML）格式导出，XML正迅速成为数据交换的标准格式。
随着几种生物体的蛋白质组数据开始积累，BioBuilder将被证明是功能注释和开发以蛋白质为中心的可定制数据库的宝贵平台。BioBuilder是开源的，可根据LGPL条款获取。
