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publications [2023/07/03 17:47] – created Dannie Durandpublications [2023/07/10 09:49] (current) Felix Langschied
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- ===== Publications =====  +====== Publications ======   
 +\\
  
-* [[https://doi.org/10.1093/nar/gkac330 Advances and Applications in the Quest for Orthologs]] +* [[https://doi.org/10.1093/nar/gkac330| 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. 
 +Nucleic Acids 
 +Res. 2022 Jul 5;50(W1):W623-W632. doi: 10.1093/nar/gkac330.
  
-<br> + 
-Glover N, Dessimoz C, Ebersberger I, Forslund SK, Gabaldón T, Huerta-Cepas J, Martin MJ, Muffato M, Patricio M, Pereira C, da Silva AS, Wang Y, Sonnhammer E, Thomas PD. &nbsp;+* [[https://doi.org/10.1093/molbev/msab098|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. 
 +Mol Biol Evol. 2021 Jul 29;38(8):3033-3045. doi: 10.1093/molbev/msab098. 
 + 
 +* [[https://doi.org/10.1093/nar/gkaa308| The Quest for Orthologs benchmark service and consensus calls in 2020. ]] \\  
 +Altenhoff AM, Garrayo-Ventas J, Cosentino S, Emms D, Glover NM, Hernández-Plaza A, Nevers Y, Sundesha V, Szklarczyk D, Fernández JM, Codó L, For Orthologs Consortium TQ, Gelpi JL, Huerta-Cepas J, Iwasaki W, Kelly S, Lecompte O, Muffato M, Martin MJ, Capella-Gutierrez S, Thomas PD, Sonnhammer E, Dessimoz C.  Nucleic Acids Res. 2020 Jul 2;48(W1):W538-W545. doi: 10.1093/nar/gkaa308.  
 + 
 +* [[https://doi.org/10.1093/molbev/msz150| Advances and Applications in the Quest for Orthologs]] \\  
 +Glover N, Dessimoz C, Ebersberger I, Forslund SK, Gabaldón T, Huerta-Cepas J, Martin MJ, Muffato M, Patricio M, Pereira C, da Silva AS, Wang Y, Sonnhammer E, Thomas PD. 
 Mol Biol Evol. 2019 Oct 1;36(10):2157-2164. doi: 10.1093/molbev/msz150.  Mol Biol Evol. 2019 Oct 1;36(10):2157-2164. doi: 10.1093/molbev/msz150. 
  
 +* [[https://doi.org/10.1093/bioinformatics/btx542| Gearing up to handle the mosaic nature of life in the quest for orthologs.]] \\
 +Forslund K, Pereira C, Capella-Gutierrez S, da Silva AS, Altenhoff A,
 +Huerta-Cepas J, Muffato M, Patricio M, Vandepoele K, Ebersberger I,
 +Blake J, Fernández Breis JT; Quest for Orthologs Consortium; Boeckmann
 +B, Gabaldón T, Sonnhammer E, Dessimoz C, Lewis S; Quest for Orthologs
 +Consortium.
 +Bioinformatics. 2018 Jan 15;34(2):323-329. doi:
 +10.1093/bioinformatics/btx542.
 +
 +* [[https://dx.doi.org/10.1038/nmeth.3830|  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. 
 +Nat Methods. 2016 May;13(5):425-30. doi: 10.1038/nmeth.3830. 
 +
 +
 +*[[https://doi.org/10.1093/bioinformatics/btu492|   Big data and other challenges in the quest for orthologs.]] \\
 +Sonnhammer, E. L., Gabaldón, T., Sousa da Silva, A. W., Martin, M., Robinson-Rechavi, M., Boeckmann, B., Thomas, P. D., Dessimoz, C., & Quest for Orthologs consortium (2014). Bioinformatics (Oxford, England), 30(21), 2993–2998.
 +
 +*[[https://dx.doi.org/10.1093/bioinformatics/bts050| Toward community standards in the quest for orthologs]] \\
 +Dessimoz C, Gabaldón T, Roos DS, Sonnhammer EL, Herrero J; Quest for
 +Orthologs Consortium.  Bioinformatics. 2012 Mar 15;28(6):900-4. doi: 10.1093/bioinformatics/bts050. Epub 2012 Feb 12. 
publications.1688406475.txt.gz · Last modified: 2023/07/03 17:47 by Dannie Durand

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