OrthoGNC:A Software for Accurate Identi?cation of Orthologs Based on Gene Neighborhood Conservation  

作　　者：Soheil Jahangiri-Tazehkand Limsoon Wong Changiz Eslahchi 

机构地区：[1]Department of Computer Science,Shahid Beheshti University,Tehran 1983969411,Iran [2]School of Computing,National University of Singapore,Singapore 117417,Singapore

出　　处：《Genomics, Proteomics & Bioinformatics》2017年第6期361-370,共10页基因组蛋白质组与生物信息学报（英文版）

摘　　要：Orthology relations can be used to transfer annotations from one gene （or protein） to another. Hence, detecting orthology relations has become an important task in the post-genomic era. Various genomic events, such as duplication and horizontal gene transfer, can cause erroneous assignment of orthology relations. In closely-related species, gene neighborhood information can be used to resolve many ambiguities in orthology inference. Here we present OrthoGNC, a software for accurately predicting pairwise orthology relations based on gene neighborhood conservation. Analyses on simulated and real data reveal the high accuracy of OrthoGNC. In addition to orthol- ogy detection, OrthoGNC can be employed to investigate the conservation of genomic context among potential orthologs detected by other methods. OrthoGNC is freely available online at http：//bs.ipm.ir/softwares/orthognc and http：//tinyurl.com/orthoGNC.Orthology relations can be used to transfer annotations from one gene （or protein） to another. Hence, detecting orthology relations has become an important task in the post-genomic era. Various genomic events, such as duplication and horizontal gene transfer, can cause erroneous assignment of orthology relations. In closely-related species, gene neighborhood information can be used to resolve many ambiguities in orthology inference. Here we present OrthoGNC, a software for accurately predicting pairwise orthology relations based on gene neighborhood conservation. Analyses on simulated and real data reveal the high accuracy of OrthoGNC. In addition to orthol- ogy detection, OrthoGNC can be employed to investigate the conservation of genomic context among potential orthologs detected by other methods. OrthoGNC is freely available online at http：//bs.ipm.ir/softwares/orthognc and http：//tinyurl.com/orthoGNC.

关 键 词：Orthotogy HOMOLOGY Gene neighborhood conser-vation Genomic context Comparative genomics 

分 类 号：Q78[生物学—分子生物学]