ArticleNucleic acids research2020
The Quest for Orthologs benchmark service and consensus calls in 2020.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
- Combining Annotation Software to Identify Orthologous Genes (CASIO) Provides a New Dataset of Orthologous Genes for Swallowtail Butterflies.Molecular ecology resources · 2026Article
- Targeted ortholog search in unannotated genome assemblies with fDOG-Assembly.Nucleic acids research · 2026Article
- A protein interactome for the last eukaryotic common ancestor illuminates the biochemical basis of modern genetic diseases.Cell genomics · 2026Article
- Reconstructing Evolutionary Histories with Hierarchical Orthologous Groups.Journal of molecular evolution · 2025Review
- Structural phylogenetics unravels the evolutionary diversification of communication systems in gram-positive bacteria and their viruses.Nature structural & molecular biology · 2025Article
- Quest for Orthologs in the era of Data Deluge and AI: Challenges and Innovations in Orthology Prediction and Data Integration.Journal of molecular evolution · 2025Review
- Feature Architecture-Aware Ortholog Search With fDOG Reveals the Distribution of Plant Cell Wall-Degrading Enzymes Across Life.Molecular biology and evolution · 2025Article
- A metric and its derived protein network for evaluation of ortholog database inconsistency.BMC bioinformatics · 2025Article
- New developments for the Quest for Orthologs benchmark service.NAR genomics and bioinformatics · 2024Article
- FAIRsoft-a practical implementation of FAIR principles for research software.Bioinformatics (Oxford, England) · 2024Article
- SonicParanoid2: fast, accurate, and comprehensive orthology inference with machine learning and language models.Genome biology · 2024Article
- Ancient eukaryotic protein interactions illuminate modern genetic traits and disorders.bioRxiv : the preprint server for biology · 2024Article
- Challenges and best practices in omics benchmarking.Nature reviews. Genetics · 2024Review
- OrthoRefine: automated enhancement of prior ortholog identification via synteny.BMC bioinformatics · 2024Article
- Comparative Population Transcriptomics Provide New Insight into the Evolutionary History and Adaptive Potential of World Ocean Krill.Molecular biology and evolution · 2023Article
- FAS: assessing the similarity between proteins using multi-layered feature architectures.Bioinformatics (Oxford, England) · 2023Article
- OrthoPhy: A Program to Construct Ortholog Data Sets Using Taxonomic Information.Genome biology and evolution · 2023Article
- Real or fake? Measuring the impact of protein annotation errors on estimates of domain gain and loss events.Frontiers in bioinformatics · 2023Article
- Widespread autogenous mRNA-protein interactions detected by CLIP-seq.Nucleic acids research · 2022Article
- Evolutionary analyses of genes in Echinodermata offer insights towards the origin of metazoan phyla.Genomics · 2022Article
Corrections and comments
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Authors and funding
23 authors.
Funding
Abstract
The identification of orthologs-genes in different species which descended from the same gene in their last common ancestor-is a prerequisite for many analyses in comparative genomics and molecular evolution. Numerous algorithms and resources have been conceived to address this problem, but benchmarking and interpreting them is fraught with difficulties (need to compare them on a common input dataset, absence of ground truth, computational cost of calling orthologs). To address this, the Quest for Orthologs consortium maintains a reference set of proteomes and provides a web server for continuous orthology benchmarking (http://orthology.benchmarkservice.org). Furthermore, consensus ortholog calls derived from public benchmark submissions are provided on the Alliance of Genome Resources website, the joint portal of NIH-funded model organism databases.
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Registered trials
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.