使用OMA鉴定直系同源基因：入门指南。
Identifying orthologs with OMA: A primer.
作者信息
Zahn-Zabal Monique, Dessimoz Christophe, Glover Natasha M
机构信息
Swiss Institute of Bioinformatics, Lausanne, 1015, Switzerland.
Department of Computational Biology, University of Lausanne, Lausanne, 1015, Switzerland.
出版信息
F1000Res. 2020 Jan 17;9:27. doi: 10.12688/f1000research.21508.1. eCollection 2020.
The Orthologous Matrix (OMA) is a method and database that allows users to identify orthologs among many genomes. OMA provides three different types of orthologs: pairwise orthologs, OMA Groups and Hierarchical Orthologous Groups (HOGs). This Primer is organized in two parts. In the first part, we provide all the necessary background information to understand the concepts of orthology, how we infer them and the different subtypes of orthology in OMA, as well as what types of analyses they should be used for. In the second part, we describe protocols for using the OMA browser to find a specific gene and its various types of orthologs. By the end of the Primer, readers should be able to (i) understand homology and the different types of orthologs reported in OMA, (ii) understand the best type of orthologs to use for a particular analysis; (iii) find particular genes of interest in the OMA browser; and (iv) identify orthologs for a given gene. The data can be freely accessed from the OMA browser at https://omabrowser.org.
直系同源矩阵（OMA）是一种方法和数据库，可让用户在众多基因组中识别直系同源物。OMA提供三种不同类型的直系同源物：成对直系同源物、OMA群组和层次直系同源群组（HOG）。本入门指南分为两部分。在第一部分中，我们提供了所有必要的背景信息，以理解直系同源的概念、我们如何推断它们以及OMA中直系同源的不同亚型，以及它们应用于何种类型的分析。在第二部分中，我们描述了使用OMA浏览器查找特定基因及其各种类型直系同源物的协议。在本入门指南结束时，读者应能够：（i）理解同源性以及OMA中报告的不同类型的直系同源物；（ii）理解用于特定分析的最佳类型的直系同源物；（iii）在OMA浏览器中找到感兴趣的特定基因；以及（iv）识别给定基因的直系同源物。数据可从https://omabrowser.org的OMA浏览器免费获取。
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