Identifying orthologs with OMA: A primer.

Details

Serval ID
serval:BIB_B7D7E8705809
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Identifying orthologs with OMA: A primer.
Journal
F1000Research
Author(s)
Zahn-Zabal M., Dessimoz C., Glover N.M.
ISSN
2046-1402 (Electronic)
ISSN-L
2046-1402
Publication state
Published
Issued date
2020
Peer-reviewed
Oui
Volume
9
Pages
27
Language
english
Notes
Publication types: Journal Article
Publication Status: epublish
Abstract
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.
Keywords
Comparative genomics, Hierarchical orthologous groups, OMA, Orthologous Matrix, orthology, phylogenetics
Pubmed
Open Access
Yes
Create date
23/01/2020 15:29
Last modification date
03/05/2020 6:02
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