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From pairwise to multiple spliced alignment.
Jammali S, Djossou A, Ouédraogo WDD, Nevers Y, Chegrane I, Ouangraoua A. Jammali S, et al. Among authors: nevers y. Bioinform Adv. 2022 Jan 5;2(1):vbab044. doi: 10.1093/bioadv/vbab044. eCollection 2022. Bioinform Adv. 2022. PMID: 36699392 Free PMC article.
The Quest for Orthologs orthology benchmark service in 2022.
Nevers Y, Jones TEM, Jyothi D, Yates B, Ferret M, Portell-Silva L, Codo L, Cosentino S, Marcet-Houben M, Vlasova A, Poidevin L, Kress A, Hickman M, Persson E, Piližota I, Guijarro-Clarke C; OpenEBench team the Quest for Orthologs Consortium; Iwasaki W, Lecompte O, Sonnhammer E, Roos DS, Gabaldón T, Thybert D, Thomas PD, Hu Y, Emms DM, Bruford E, Capella-Gutierrez S, Martin MJ, Dessimoz C, Altenhoff A. Nevers Y, et al. Nucleic Acids Res. 2022 Jul 5;50(W1):W623-W632. doi: 10.1093/nar/gkac330. Nucleic Acids Res. 2022. PMID: 35552456 Free PMC article.
OrthoInspector 3.0: open portal for comparative genomics.
Nevers Y, Kress A, Defosset A, Ripp R, Linard B, Thompson JD, Poch O, Lecompte O. Nevers Y, et al. Nucleic Acids Res. 2019 Jan 8;47(D1):D411-D418. doi: 10.1093/nar/gky1068. Nucleic Acids Res. 2019. PMID: 30380106 Free PMC article.
How to build phylogenetic species trees with OMA.
Dylus D, Nevers Y, Altenhoff AM, Gürtler A, Dessimoz C, Glover NM. Dylus D, et al. Among authors: nevers y. F1000Res. 2020 Jun 4;9:511. doi: 10.12688/f1000research.23790.2. eCollection 2020. F1000Res. 2020. PMID: 35722083 Free PMC article.
Quality assessment of gene repertoire annotations with OMArk.
Nevers Y, Warwick Vesztrocy A, Rossier V, Train CM, Altenhoff A, Dessimoz C, Glover NM. Nevers Y, et al. Nat Biotechnol. 2024 Feb 21. doi: 10.1038/s41587-024-02147-w. Online ahead of print. Nat Biotechnol. 2024. PMID: 38383603
Ten Years of Collaborative Progress in the Quest for Orthologs.
Linard B, Ebersberger I, McGlynn SE, Glover N, Mochizuki T, Patricio M, Lecompte O, Nevers Y, Thomas PD, Gabaldón T, Sonnhammer E, Dessimoz C, Uchiyama I; QFO Consortium. Linard B, et al. Among authors: nevers y. Mol Biol Evol. 2021 Jul 29;38(8):3033-3045. doi: 10.1093/molbev/msab098. Mol Biol Evol. 2021. PMID: 33822172 Free PMC article.
OMA orthology in 2021: website overhaul, conserved isoforms, ancestral gene order and more.
Altenhoff AM, Train CM, Gilbert KJ, Mediratta I, Mendes de Farias T, Moi D, Nevers Y, Radoykova HS, Rossier V, Warwick Vesztrocy A, Glover NM, Dessimoz C. Altenhoff AM, et al. Among authors: nevers y. Nucleic Acids Res. 2021 Jan 8;49(D1):D373-D379. doi: 10.1093/nar/gkaa1007. Nucleic Acids Res. 2021. PMID: 33174605 Free PMC article.
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