Annotation Extensions
Annotation Extensions
复制标题
DOI：
10.1007/978-1-4939-3743-1_17
复制
发表时间：
2017-01-01
期刊：
影响因子：
--
通讯作者：
Lovering, Ruth C.
中科院分区：
文献类型：
--
作者：
Huntley, Rachael P.;Lovering, Ruth C.
基因本体（GO）注释目前可以表示的知识的特异性仍然受到GO注释文件的传统格式的限制，这种格式是为了简单起见而故意设计的，以保持进入门槛低，从而鼓励最初的采用。从历史上看，可以在GO注释中捕获的信息只是基因产物的作用或位置，尽管可以指定遗传相互作用或结合伴侣。虽然在原始GO注释格式中没有用于捕获关于GO术语的上下文的额外信息（例如活性的靶基因或分子功能的位置）的机制，但GO联盟的长期愿景是在其注释中提供更大的表达性以捕获生理相关信息。GO联盟已经在注释格式中引入了一个新的字段，即注释扩展，其可以用于捕获有价值的上下文细节。这提供了实验验证的基因产物和其他生理信息之间的联系，这对于准确分析途径和网络数据至关重要。本章将提供注释扩展的简单概述，并以其使用示例进行说明，并解释为什么它们对科学家和生物信息学家都很有用。
The specificity of knowledge that Gene Ontology (GO) annotations currently can represent is still restricted by the legacy format of the GO annotation file, a format intentionally designed for simplicity to keep the barriers to entry low and thus encourage initial adoption. Historically, the information that could be captured in a GO annotation was simply the role or location of a gene product, although genetically interacting or binding partners could be specified. While there was no mechanism within the original GO annotation format for capturing additional information about the context of a GO term, such as the target gene of an activity or the location of a molecular function, the long-term vision for the GO Consortium was to provide greater expressivity in its annotations to capture physiologically relevant information.Thus, as a step forwards, the GO Consortium has introduced a new field into the annotation format, annotation extensions, which can be used to capture valuable contextual detail. This provides experimentally verified links between gene products and other physiological information that is crucial for accurate analysis of pathway and network data. This chapter will provide a simple overview of annotation extensions, illustrated with examples of their usage, and explain why they are useful for scientists and bioinformaticians alike.