ArticleGenomics, proteomics & bioinformatics2017
OrthoGNC: A Software for Accurate Identification of Orthologs Based on Gene Neighborhood Conservation.
Article in Genomics, proteomics & bioinformatics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 20 citations in OpenAlex.
- Quantifying the Influence of Genetic Context on Duplicated Mammalian Genes.Molecular biology and evolution · 2026Article
- De novo discovery of conserved gene clusters in microbial genomes with Spacedust.Nature methods · 2025Article
- Quantifying the influence of genetic context on duplicated mammalian genes.bioRxiv : the preprint server for biology · 2025Article
- Elucidating the Mesocarp Drupe Transcriptome of Açai (International journal of molecular sciences · 2023Article
- Integrating gene annotation with orthology inference at scale.Science (New York, N.Y.) · 2023Article
- Manual annotation ofF1000Research · 2022Article
- Reciprocal best match graphs.Journal of mathematical biology · 2020Article
- Best match graphs.Journal of mathematical biology · 2019Article
- Genome-wide identification and expression profiling of trihelix gene family under abiotic stresses in wheat.BMC genomics · 2019Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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 orthology 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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.