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Towards practical, high-capacity, low-maintenance information storage in synthesized DNA.

Goldman N, Bertone P, Chen S, Dessimoz C, LeProust EM, Sipos B, Birney E. Goldman N, et al. Among authors: dessimoz c. Nature. 2013 Feb 7;494(7435):77-80. doi: 10.1038/nature11875. Epub 2013 Jan 23. Nature. 2013. PMID: 23354052 Free PMC article.

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CAFA and the open world of protein function predictions.

Dessimoz C, Škunca N, Thomas PD. Dessimoz C, et al. Trends Genet. 2013 Nov;29(11):609-10. doi: 10.1016/j.tig.2013.09.005. Epub 2013 Oct 15. Trends Genet. 2013. PMID: 24138813 No abstract available.

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The draft genome sequence of the ferret (Mustela putorius furo) facilitates study of human respiratory disease.

Peng X, Alföldi J, Gori K, Eisfeld AJ, Tyler SR, Tisoncik-Go J, Brawand D, Law GL, Skunca N, Hatta M, Gasper DJ, Kelly SM, Chang J, Thomas MJ, Johnson J, Berlin AM, Lara M, Russell P, Swofford R, Turner-Maier J, Young S, Hourlier T, Aken B, Searle S, Sun X, Yi Y, Suresh M, Tumpey TM, Siepel A, Wisely SM, Dessimoz C, Kawaoka Y, Birren BW, Lindblad-Toh K, Di Palma F, Engelhardt JF, Palermo RE, Katze MG. Peng X, et al. Among authors: dessimoz c. Nat Biotechnol. 2014 Dec;32(12):1250-5. doi: 10.1038/nbt.3079. Epub 2014 Nov 17. Nat Biotechnol. 2014. PMID: 25402615 Free PMC article.

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Simple chained guide trees give poorer multiple sequence alignments than inferred trees in simulation and phylogenetic benchmarks.

Tan G, Gil M, Löytynoja AP, Goldman N, Dessimoz C. Tan G, et al. Among authors: dessimoz c. Proc Natl Acad Sci U S A. 2015 Jan 13;112(2):E99-100. doi: 10.1073/pnas.1417526112. Epub 2015 Jan 6. Proc Natl Acad Sci U S A. 2015. PMID: 25564672 Free PMC article. No abstract available.

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Inferring horizontal gene transfer.

Ravenhall M, Škunca N, Lassalle F, Dessimoz C. Ravenhall M, et al. Among authors: dessimoz c. PLoS Comput Biol. 2015 May 28;11(5):e1004095. doi: 10.1371/journal.pcbi.1004095. eCollection 2015 May. PLoS Comput Biol. 2015. PMID: 26020646 Free PMC article.

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Clustering Genes of Common Evolutionary History.

Gori K, Suchan T, Alvarez N, Goldman N, Dessimoz C. Gori K, et al. Among authors: dessimoz c. Mol Biol Evol. 2016 Jun;33(6):1590-605. doi: 10.1093/molbev/msw038. Epub 2016 Feb 17. Mol Biol Evol. 2016. PMID: 26893301 Free PMC article.

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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: dessimoz c. 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.

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Who watches the watchmen? An appraisal of benchmarks for multiple sequence alignment.

Iantorno S, Gori K, Goldman N, Gil M, Dessimoz C. Iantorno S, et al. Among authors: dessimoz c. Methods Mol Biol. 2014;1079:59-73. doi: 10.1007/978-1-62703-646-7_4. Methods Mol Biol. 2014. PMID: 24170395 Review.

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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: dessimoz c. Bioinformatics. 2014 Nov 1;30(21):2993-8. doi: 10.1093/bioinformatics/btu492. Epub 2014 Jul 26. Bioinformatics. 2014. PMID: 25064571 Free PMC article.

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Current Methods for Automated Filtering of Multiple Sequence Alignments Frequently Worsen Single-Gene Phylogenetic Inference.

Tan G, Muffato M, Ledergerber C, Herrero J, Goldman N, Gil M, Dessimoz C. Tan G, et al. Among authors: dessimoz c. Syst Biol. 2015 Sep;64(5):778-91. doi: 10.1093/sysbio/syv033. Epub 2015 Jun 1. Syst Biol. 2015. PMID: 26031838 Free PMC article.

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