Annotation of post-translational modifications in the Swiss-Prot knowledge base
Annotation of post-translational modifications in the Swiss-Prot knowledge base
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DOI：
10.1002/pmic.200300764
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发表时间：
2004-06-01
期刊：
影响因子：
3.4
通讯作者：
Bairoch, A
中科院分区：
文献类型：
--
作者：
Farriol-Mathis, N;Garavelli, JS;Bairoch, A
高通量蛋白质组学研究产生了大量关于翻译后修饰（PTM）的新信息。Swiss-Prot知识库面临的挑战是以一致和结构化的方式包括这些信息，以便于生物学家专家用户和计算机程序轻松检索和促进理解。因此，我们正在对Swiss-Prot中表示的PTM功能的注释进行标准化。事实上，一个受控的词汇表已经与每一个描述的PTM相关联。在本文中，我们提出了特征注释的主要更新，并通过展示几个例子，解释注释是如何实现的，它意味着什么。Mod-Prot是Swiss-Prot的未来伴侣数据库，致力于PTM的生物学方面（即，方法的一般描述、修饰酶的特性、分类学范围、质量修饰）。最后，我们再次鼓励科学界（即，个人研究人员和数据库维护人员）与我们互动，以便我们能够不断提高我们的服务质量和准确性。
High-throughput proteomic studies produce a wealth of new information regarding post-translational modifications (PTMs). The Swiss-Prot knowledge base is faced with the challenge of including this information in a consistent and structured way, in order to facilitate easy retrieval and promote understanding by biologist expert users as well as computer programs. We are therefore standardizing the annotation of PTM features represented in Swiss-Prot. Indeed, a controlled vocabulary has been associated with every described PTM. In this paper, we present the major update of the feature annotation, and, by showing a few examples, explain how the annotation is implemented and what it means. Mod-Prot, a future companion database of Swiss-Prot, devoted to the biological aspects of PTMs (i.e., general description of the process, identity of the modification enzyme(s), taxonomic range, mass modification) is briefly described. Finally we encourage once again the scientific community (i.e., both individual researchers and database maintainers) to interact with us, so that we can continuously enhance the quality and swiftness of our services.