Evaluating Functional Annotations of Enzymes Using the Gene Ontology.
Evaluating Functional Annotations of Enzymes Using the Gene Ontology.
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DOI：
10.1007/978-1-4939-3743-1_9
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发表时间：
2017
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通讯作者：
Babbitt PC
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作者：
Holliday GL;Davidson R;Akiva E;Babbitt PC
基因本体（GO）（Ashburner等人，Nat Genet 25（1）：25-29，2000）是用于评估蛋白质数据集中的注释的方法的信息学武器库中的强大工具。从识别感兴趣的蛋白质的最近的良好注释的同源物到预测错误注释发生的位置，再到了解您对分配给这些蛋白质的注释的信心是至关重要的。在本章中，我们将探讨是什么使酶独特，以及我们如何使用GO来推断基于序列相似性的蛋白质功能方面。这些可以从识别错误注释或预测功能中的其他错误到完全未知功能的酶的准确功能预测。虽然GO注释适用于任何基因产物，但我们在此集中描述我们用于结构-功能连锁数据库（SFLD）中酶的分级分类的方法（Akiva et al.，Nucleic Acids Res 42（Database issue）：D521-530，2014）作为基于GO术语的注释转移的知情利用的指南。
The Gene Ontology (GO) (Ashburner et al., Nat Genet 25(1):25–29, 2000) is a powerful tool in the informatics arsenal of methods for evaluating annotations in a protein dataset. From identifying the nearest well annotated homologue of a protein of interest to predicting where misannotation has occurred to knowing how confident you can be in the annotations assigned to those proteins is critical. In this chapter we explore what makes an enzyme unique and how we can use GO to infer aspects of protein function based on sequence similarity. These can range from identification of misannotation or other errors in a predicted function to accurate function prediction for an enzyme of entirely unknown function. Although GO annotation applies to any gene products, we focus here a describing our approach for hierarchical classification of enzymes in the Structure-Function Linkage Database (SFLD) (Akiva et al., Nucleic Acids Res 42(Database issue):D521–530, 2014) as a guide for informed utilisation of annotation transfer based on GO terms.