|
| 37081138 | Inference of phylogenetic trees directly from raw sequencing reads using Read2Tree. | Nat Biotechnol | 2024 |
| 37962356 | OMA orthology in 2024: improved prokaryote coverage, ancestral and extant GO enrichment, a revamped synteny viewer and more in the OMA Ecosystem. | Nucleic Acids Res | 2024 |
| 36561179 | Read2Tree: scalable and accurate phylogenetic trees from raw reads. | bioRxiv | 2022 |
| 35561194 | OMAMO: orthology-based alternative model organism selection. | Bioinformatics | 2022 |
| 35552456 | The Quest for Orthologs orthology benchmark service in 2022. | Nucleic Acids Res | 2022 |
| 33174605 | OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more. | Nucleic Acids Res | 2021 |
| 32374845 | The Quest for Orthologs benchmark service and consensus calls in 2020. | Nucleic Acids Res | 2020 |
| 30508066 | iHam and pyHam: visualizing and processing hierarchical orthologous groups. | Bioinformatics | 2019 |
| 31744546 | The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens. | Genome Biol | 2019 |
| 30184069 | Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome. | Bioinformatics | 2019 |
| 31278664 | Inferring Orthology and Paralogy. | Methods Mol Biol | 2019 |
| 30648004 | Assigning confidence scores to homoeologs using fuzzy logic. | PeerJ | 2019 |
| 29106550 | The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces. | Nucleic Acids Res | 2018 |
| 28968857 | Gearing up to handle the mosaic nature of life in the quest for orthologs. | Bioinformatics | 2018 |
| 28881964 | Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference. | Bioinformatics | 2017 |
| 27043882 | Standardized benchmarking in the quest for orthologs. | Nat Methods | 2016 |
| 27604469 | An expanded evaluation of protein function prediction methods shows an improvement in accuracy. | Genome Biol | 2016 |
| 25399418 | The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements. | Nucleic Acids Res | 2015 |
| 24904625 | Distinct evolutionary strategies in the GGPPS family from plants. | Front Plant Sci | 2014 |
| 25320677 | Speeding up all-against-all protein comparisons while maintaining sensitivity by considering subsequence-level homology. | PeerJ | 2014 |
| 24792157 | Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support. | Nucleic Acids Res | 2014 |
| 23342000 | Inferring hierarchical orthologous groups from orthologous gene pairs. | PLoS One | 2013 |
| 23451112 | The impact of gene duplication, insertion, deletion, lateral gene transfer and sequencing error on orthology inference: a simulation study. | PLoS One | 2013 |
| 22407712 | Inferring orthology and paralogy. | Methods Mol Biol | 2012 |
| 22693439 | Quality of computationally inferred gene ontology annotations. | PLoS Comput Biol | 2012 |
| 22615551 | Resolving the ortholog conjecture: orthologs tend to be weakly, but significantly, more similar in function than paralogs. | PLoS Comput Biol | 2012 |
| 21113020 | OMA 2011: orthology inference among 1000 complete genomes. | Nucleic Acids Res | 2011 |
| 19148271 | Phylogenetic and functional assessment of orthologs inference projects and methods. | PLoS Comput Biol | 2009 |