The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces AM Altenhoff, NM Glover, CM Train, K Kaleb, A Warwick Vesztrocy, ... Nucleic acids research 46 (D1), D477-D485, 2018 | 247 | 2018 |
The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements AM Altenhoff, N Škunca, N Glover, CM Train, A Sueki, I Piližota, K Gori, ... Nucleic acids research 43 (D1), D240-D249, 2015 | 246 | 2015 |
Standardized benchmarking in the quest for orthologs AM Altenhoff, B Boeckmann, S Capella-Gutierrez, DA Dalquen, T DeLuca, ... Nature methods 13 (5), 425-430, 2016 | 240 | 2016 |
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more AM Altenhoff, CM Train, KJ Gilbert, I Mediratta, T Mendes de Farias, D Moi, ... Nucleic acids research 49 (D1), D373-D379, 2021 | 198 | 2021 |
Orthologous Matrix (OMA) algorithm 2.0: more robust to asymmetric evolutionary rates and more scalable hierarchical orthologous group inference CM Train, NM Glover, GH Gonnet, AM Altenhoff, C Dessimoz Bioinformatics 33 (14), i75-i82, 2017 | 94 | 2017 |
iHam and pyHam: visualizing and processing hierarchical orthologous groups CM Train, M Pignatelli, A Altenhoff, C Dessimoz Bioinformatics 35 (14), 2504-2506, 2019 | 37 | 2019 |
Quality assessment of gene repertoire annotations with OMArk Y Nevers, A Warwick Vesztrocy, V Rossier, CM Train, A Altenhoff, ... Nature Biotechnology, 1-10, 2024 | 34 | 2024 |
OMA orthology in 2024: improved prokaryote coverage, ancestral and extant GO enrichment, a revamped synteny viewer and more in the OMA Ecosystem AM Altenhoff, A Warwick Vesztrocy, C Bernard, CM Train, ... Nucleic Acids Research 52 (D1), D513-D521, 2024 | 31 | 2024 |
Multifaceted quality assessment of gene repertoire annotation with OMArk Y Nevers, V Rossier, CM Train, A Altenhoff, C Dessimoz, N Glover bioRxiv, 2022.11. 25.517970, 2022 | 14 | 2022 |
New genome assembly of the barn owl (Tyto alba alba) AL Ducrest, S Neuenschwander, E Schmid‐Siegert, M Pagni, C Train, ... Ecology and evolution 10 (5), 2284-2298, 2020 | 14 | 2020 |
Quest for Orthologs consortium, Toni Gabaldón, Suzanna E Lewis, Paul D Thomas, Erik Sonnhammer, and Christophe Dessimoz. Standardized benchmarking in the quest for orthologs AM Altenhoff, B Boeckmann, S Capella-Gutierrez, DA Dalquen, T DeLuca, ... Nature Methods 13, 425-430, 2016 | 8 | 2016 |
Taxon sampling unequally affects individual nodes in a phylogenetic tree: consequences for model gene tree construction in SwissTree B Boeckmann, D Dylus, S Moretti, A Altenhoff, CM Train, E Kriventseva, ... biorxiv, 181966, 2017 | 5 | 2017 |
Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome I Piližota, CM Train, A Altenhoff, H Redestig, C Dessimoz Bioinformatics 35 (7), 1159-1166, 2019 | 3 | 2019 |
Matreex: Compact and Interactive Visualization for Scalable Studies of Large Gene Families V Rossier, C Train, Y Nevers, M Robinson-Rechavi, C Dessimoz Genome Biology and Evolution 16 (6), 2024 | 2 | 2024 |
EdgeHOG: fine-grained ancestral gene order inference at tree-of-life scale C Bernard, Y Nevers, NBR Karampudi, KJ Gilbert, C Train, AW Vesztrocy, ... bioRxiv, 2024.08. 28.610045, 2024 | | 2024 |
Inferring Hierarchical Orthologous Groups C Train éditeur non identifié, 2019 | | 2019 |