Sequence Ontology Annotation Guide
Sequence Ontology Annotation Guide
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DOI：
10.1002/cfg.446
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发表时间：
2004-12-01
影响因子：
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通讯作者：
Lewes, SE
中科院分区：
文献类型：
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作者：
Eilbeck, K;Lewes, SE
这个序列本体论（SO）[13]旨在通过提供术语的受控词汇表以及它们之间的关系来统一我们描述序列注释的方式。使用SO术语来标记序列注释的部分极大地促进了其内容的下游分析，因为它确保了由不同组产生的注释符合单一标准。这极大地方便了注释内容和特征的分析，例如UTR的比较，选择性剪接等。由于SO还指定了特征之间的关系，例如part_of，kind_of，用SO术语描述的注释也是验证和可视化软件的更好的基础。本文档提供了一个分步指南，用于生成描述序列注释的SO兼容文件。我们用一个有注释的基因作为例子来说明这一点。首先，我们展示了描述基因特征所需的术语在SO中的位置以及它们之间的关系。然后，我们一行一行地展示如何格式化文件以构建该基因的SO兼容注释。版权所有（c）2005年约翰威利父子有限公司。
This Sequence Ontology (SO) [13] aims to unify the way in which we describe sequence annotations, by providing a controlled vocabulary of terms and the relationships between them. Using SO terms to label the parts of sequence annotations greatly facilitates downstream analyses of their contents, as it ensures that annotations produced by different groups conform to a single standard. This greatly facilitates analyses of annotation contents and characteristics, e.g. comparisons of UTRs, alternative splicing, etc. Because SO also specifies the relationships between features, e.g. part_of, kind_of, annotations described with SO terms are also better substrates for validation and visualization software.This document provides a step-by-step guide to producing a SO compliant file describing a sequence annotation. We illustrate this by using an annotated gene as an example. First we show where the terms needed to describe the gene's features are located in SO and their relationships to one another. We then show line by line how to format the file to construct a SO compliant annotation of this gene. Copyright (c) 2005 John Wiley & Sons, Ltd.