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Aggressive assembly of pyrosequencing reads with mates.
Miller JR, Delcher AL, Koren S, Venter E, Walenz BP, Brownley A, Johnson J, Li K, Mobarry C, Sutton G. Miller JR, et al. Among authors: koren s. Bioinformatics. 2008 Dec 15;24(24):2818-24. doi: 10.1093/bioinformatics/btn548. Epub 2008 Oct 24. Bioinformatics. 2008. PMID: 18952627 Free PMC article.
Assembly algorithms for next-generation sequencing data.
Miller JR, Koren S, Sutton G. Miller JR, et al. Among authors: koren s. Genomics. 2010 Jun;95(6):315-27. doi: 10.1016/j.ygeno.2010.03.001. Epub 2010 Mar 6. Genomics. 2010. PMID: 20211242 Free PMC article. Review.
An algorithm for automated closure during assembly.
Koren S, Miller JR, Walenz BP, Sutton G. Koren S, et al. BMC Bioinformatics. 2010 Sep 10;11:457. doi: 10.1186/1471-2105-11-457. BMC Bioinformatics. 2010. PMID: 20831800 Free PMC article.
Bambus 2: scaffolding metagenomes.
Koren S, Treangen TJ, Pop M. Koren S, et al. Bioinformatics. 2011 Nov 1;27(21):2964-71. doi: 10.1093/bioinformatics/btr520. Epub 2011 Sep 16. Bioinformatics. 2011. PMID: 21926123 Free PMC article.
GAGE: A critical evaluation of genome assemblies and assembly algorithms.
Salzberg SL, Phillippy AM, Zimin A, Puiu D, Magoc T, Koren S, Treangen TJ, Schatz MC, Delcher AL, Roberts M, Marçais G, Pop M, Yorke JA. Salzberg SL, et al. Among authors: koren s. Genome Res. 2012 Mar;22(3):557-67. doi: 10.1101/gr.131383.111. Epub 2012 Jan 6. Genome Res. 2012. PMID: 22147368 Free PMC article.
The bonobo genome compared with the chimpanzee and human genomes.
Prüfer K, Munch K, Hellmann I, Akagi K, Miller JR, Walenz B, Koren S, Sutton G, Kodira C, Winer R, Knight JR, Mullikin JC, Meader SJ, Ponting CP, Lunter G, Higashino S, Hobolth A, Dutheil J, Karakoç E, Alkan C, Sajjadian S, Catacchio CR, Ventura M, Marques-Bonet T, Eichler EE, André C, Atencia R, Mugisha L, Junhold J, Patterson N, Siebauer M, Good JM, Fischer A, Ptak SE, Lachmann M, Symer DE, Mailund T, Schierup MH, Andrés AM, Kelso J, Pääbo S. Prüfer K, et al. Among authors: koren s. Nature. 2012 Jun 28;486(7404):527-31. doi: 10.1038/nature11128. Nature. 2012. PMID: 22722832 Free PMC article.
Genomic insights into the Ixodes scapularis tick vector of Lyme disease.
Gulia-Nuss M, Nuss AB, Meyer JM, Sonenshine DE, Roe RM, Waterhouse RM, Sattelle DB, de la Fuente J, Ribeiro JM, Megy K, Thimmapuram J, Miller JR, Walenz BP, Koren S, Hostetler JB, Thiagarajan M, Joardar VS, Hannick LI, Bidwell S, Hammond MP, Young S, Zeng Q, Abrudan JL, Almeida FC, Ayllón N, Bhide K, Bissinger BW, Bonzon-Kulichenko E, Buckingham SD, Caffrey DR, Caimano MJ, Croset V, Driscoll T, Gilbert D, Gillespie JJ, Giraldo-Calderón GI, Grabowski JM, Jiang D, Khalil SMS, Kim D, Kocan KM, Koči J, Kuhn RJ, Kurtti TJ, Lees K, Lang EG, Kennedy RC, Kwon H, Perera R, Qi Y, Radolf JD, Sakamoto JM, Sánchez-Gracia A, Severo MS, Silverman N, Šimo L, Tojo M, Tornador C, Van Zee JP, Vázquez J, Vieira FG, Villar M, Wespiser AR, Yang Y, Zhu J, Arensburger P, Pietrantonio PV, Barker SC, Shao R, Zdobnov EM, Hauser F, Grimmelikhuijzen CJP, Park Y, Rozas J, Benton R, Pedra JHF, Nelson DR, Unger MF, Tubio JMC, Tu Z, Robertson HM, Shumway M, Sutton G, Wortman JR, Lawson D, Wikel SK, Nene VM, Fraser CM, Collins FH, Birren B, Nelson KE, Caler E, Hill CA. Gulia-Nuss M, et al. Among authors: koren s. Nat Commun. 2016 Feb 9;7:10507. doi: 10.1038/ncomms10507. Nat Commun. 2016. PMID: 26856261 Free PMC article.
320 results