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Page 1
Quest for Orthologs in the Era of Biodiversity Genomics.
Langschied F, Bordin N, Cosentino S, Fuentes-Palacios D, Glover N, Hiller M, Hu Y, Huerta-Cepas J, Coelho LP, Iwasaki W, Majidian S, Manzano-Morales S, Persson E, Richards TA, Gabaldón T, Sonnhammer E, Thomas PD, Dessimoz C, Ebersberger I. Langschied F, et al. Among authors: gabaldon t. Genome Biol Evol. 2024 Oct 9;16(10):evae224. doi: 10.1093/gbe/evae224. Genome Biol Evol. 2024. PMID: 39404012 Free PMC article. Review.
Joining forces in the quest for orthologs.
Gabaldón T, Dessimoz C, Huxley-Jones J, Vilella AJ, Sonnhammer EL, Lewis S. Gabaldón T, et al. Genome Biol. 2009;10(9):403. doi: 10.1186/gb-2009-10-9-403. Epub 2009 Sep 29. Genome Biol. 2009. PMID: 19785718 Free PMC article.
Toward community standards in the quest for orthologs.
Dessimoz C, Gabaldón T, Roos DS, Sonnhammer EL, Herrero J; Quest for Orthologs Consortium. Dessimoz C, et al. Among authors: gabaldon t. Bioinformatics. 2012 Mar 15;28(6):900-4. doi: 10.1093/bioinformatics/bts050. Epub 2012 Feb 12. Bioinformatics. 2012. PMID: 22332236 Free PMC article.
PhylomeDB v4: zooming into the plurality of evolutionary histories of a genome.
Huerta-Cepas J, Capella-Gutiérrez S, Pryszcz LP, Marcet-Houben M, Gabaldón T. Huerta-Cepas J, et al. Among authors: gabaldon t. Nucleic Acids Res. 2014 Jan;42(Database issue):D897-902. doi: 10.1093/nar/gkt1177. Epub 2013 Nov 25. Nucleic Acids Res. 2014. PMID: 24275491 Free PMC article.
eggNOG v4.0: nested orthology inference across 3686 organisms.
Powell S, Forslund K, Szklarczyk D, Trachana K, Roth A, Huerta-Cepas J, Gabaldón T, Rattei T, Creevey C, Kuhn M, Jensen LJ, von Mering C, Bork P. Powell S, et al. Among authors: gabaldon t. Nucleic Acids Res. 2014 Jan;42(Database issue):D231-9. doi: 10.1093/nar/gkt1253. Epub 2013 Dec 1. Nucleic Acids Res. 2014. PMID: 24297252 Free PMC article.
High variability of mitochondrial gene order among fungi.
Aguileta G, de Vienne DM, Ross ON, Hood ME, Giraud T, Petit E, Gabaldón T. Aguileta G, et al. Among authors: gabaldon t. Genome Biol Evol. 2014 Feb;6(2):451-65. doi: 10.1093/gbe/evu028. Genome Biol Evol. 2014. PMID: 24504088 Free PMC article.
Big data and other challenges in the quest for orthologs.
Sonnhammer EL, Gabaldón T, Sousa da Silva AW, Martin M, Robinson-Rechavi M, Boeckmann B, Thomas PD, Dessimoz C; Quest for Orthologs consortium. Sonnhammer EL, et al. Among authors: gabaldon t. Bioinformatics. 2014 Nov 1;30(21):2993-8. doi: 10.1093/bioinformatics/btu492. Epub 2014 Jul 26. Bioinformatics. 2014. PMID: 25064571 Free PMC article.
Quest for Orthologs Entails Quest for Tree of Life: In Search of the Gene Stream.
Boeckmann B, Marcet-Houben M, Rees JA, Forslund K, Huerta-Cepas J, Muffato M, Yilmaz P, Xenarios I, Bork P, Lewis SE, Gabaldón T; Quest for Orthologs Species Tree Working Group. Boeckmann B, et al. Among authors: gabaldon t. Genome Biol Evol. 2015 Jul 1;7(7):1988-99. doi: 10.1093/gbe/evv121. Genome Biol Evol. 2015. PMID: 26133389 Free PMC article.
Science 311:1283-1287) and by Huerta-Cepas et al. (Huerta-Cepas J, Marcet-Houben M, Gabaldon T. 2014. A nested phylogenetic reconstruction approach provides scalable resolution in the eukaryotic Tree Of Life. ...
Science 311:1283-1287) and by Huerta-Cepas et al. (Huerta-Cepas J, Marcet-Houben M, Gabaldon T. 2014. A nested phylogenetic re …
Standardized benchmarking in the quest for orthologs.
Altenhoff AM, Boeckmann B, Capella-Gutierrez S, Dalquen DA, DeLuca T, Forslund K, Huerta-Cepas J, Linard B, Pereira C, Pryszcz LP, Schreiber F, da Silva AS, Szklarczyk D, Train CM, Bork P, Lecompte O, von Mering C, Xenarios I, Sjölander K, Jensen LJ, Martin MJ, Muffato M; Quest for Orthologs consortium; Gabaldón T, Lewis SE, Thomas PD, Sonnhammer E, Dessimoz C. Altenhoff AM, et al. Among authors: gabaldon t. Nat Methods. 2016 May;13(5):425-30. doi: 10.1038/nmeth.3830. Epub 2016 Apr 4. Nat Methods. 2016. PMID: 27043882 Free PMC article.
331 results