ArticleNature methods2025
Orthology inference at scale with FastOMA.
Article in Nature methods, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Long-term rock dove (Columba livia) primordial germ cell culture: A tool towards avian conservation.The Journal of heredity · 2026Article
- Incomplete functional divergence drives MADS-box gene synergy during floral development in tomato.PLoS biology · 2026Article
- Emerging experimental and bioinformatic approaches in RNA interference-based pest control research.Insect molecular biology · 2026Review
- Genomic signature of repeated transitions to diurnality in spiders.Molecular biology and evolution · 2026Article
- OrthoFinder: improved phylogenetic orthology inference with enhanced accuracy and scalability.Nature methods · 2026Article
- PGDD 2.0: Plant Genome Duplication Database with updated content and tools.Nucleic acids research · 2026Article
- Reconstructing Evolutionary Histories with Hierarchical Orthologous Groups.Journal of molecular evolution · 2025Review
- 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
- OrthoXML-Tools: A Toolkit for Manipulating OrthoXML Files for Orthology Data.Journal of molecular evolution · 2025Article
- NCBI Orthologs: Public Resource and Scalable Method for Computing High-Precision Orthologs Across Eukaryotic Genomes.Journal of molecular evolution · 2025Article
- Linking phenotype to genotype using comprehensive genomic comparisons.Current opinion in genetics & development · 2025Review
- EdgeHOG: a method for fine-grained ancestral gene order inference at large scale.Nature ecology & evolution · 2025Article
- M1CR0B1AL1Z3R 2.0: an enhanced web server for comparative analysis of bacterial genomes at scale.Nucleic acids research · 2025Article
- EvANI benchmarking workflow for evolutionary distance estimation.Briefings in bioinformatics · 2025Article
- EvANI benchmarking workflow for evolutionary distance estimation.bioRxiv : the preprint server for biology · 2025Article
- New developments for the Quest for Orthologs benchmark service.NAR genomics and bioinformatics · 2024Article
- Matreex: Compact and Interactive Visualization for Scalable Studies of Large Gene Families.Genome biology and evolution · 2024Article
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9 authors.
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Abstract
The surge in genome data, with ongoing efforts aiming to sequence 1.5 M eukaryotes in a decade, could revolutionize genomics, revealing the origins, evolution and genetic innovations of biological processes. Yet, traditional genomics methods scale poorly with such large datasets. Here, addressing this, 'FastOMA' provides linear scalability for orthology inference, enabling the processing of thousands of eukaryotic genomes within a day. FastOMA maintains the high accuracy and resolution of the well-established Orthologous Matrix (OMA) approach in benchmarks. FastOMA is available via GitHub at https://github.com/DessimozLab/FastOMA/ .
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