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154 results

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Scalable, accessible and reproducible reference genome assembly and evaluation in Galaxy.
Larivière D, Abueg L, Brajuka N, Gallardo-Alba C, Grüning B, Ko BJ, Ostrovsky A, Palmada-Flores M, Pickett BD, Rabbani K, Antunes A, Balacco JR, Chaisson MJP, Cheng H, Collins J, Couture M, Denisova A, Fedrigo O, Gallo GR, Giani AM, Gooder GM, Horan K, Jain N, Johnson C, Kim H, Lee C, Marques-Bonet T, O'Toole B, Rhie A, Secomandi S, Sozzoni M, Tilley T, Uliano-Silva M, van den Beek M, Williams RW, Waterhouse RM, Phillippy AM, Jarvis ED, Schatz MC, Nekrutenko A, Formenti G. Larivière D, et al. Among authors: phillippy am. Nat Biotechnol. 2024 Mar;42(3):367-370. doi: 10.1038/s41587-023-02100-3. Nat Biotechnol. 2024. PMID: 38278971 Free PMC article. No abstract available.
Comprehensive DNA signature discovery and validation.
Phillippy AM, Mason JA, Ayanbule K, Sommer DD, Taviani E, Huq A, Colwell RR, Knight IT, Salzberg SL. Phillippy AM, et al. PLoS Comput Biol. 2007 May;3(5):e98. doi: 10.1371/journal.pcbi.0030098. Epub 2007 Apr 20. PLoS Comput Biol. 2007. PMID: 17511514 Free PMC article.
Genome sequence of the PCE-dechlorinating bacterium Dehalococcoides ethenogenes.
Seshadri R, Adrian L, Fouts DE, Eisen JA, Phillippy AM, Methe BA, Ward NL, Nelson WC, Deboy RT, Khouri HM, Kolonay JF, Dodson RJ, Daugherty SC, Brinkac LM, Sullivan SA, Madupu R, Nelson KE, Kang KH, Impraim M, Tran K, Robinson JM, Forberger HA, Fraser CM, Zinder SH, Heidelberg JF. Seshadri R, et al. Among authors: phillippy am. Science. 2005 Jan 7;307(5706):105-8. doi: 10.1126/science.1102226. Science. 2005. PMID: 15637277
Long-read, whole-genome shotgun sequence data for five model organisms.
Kim KE, Peluso P, Babayan P, Yeadon PJ, Yu C, Fisher WW, Chin CS, Rapicavoli NA, Rank DR, Li J, Catcheside DE, Celniker SE, Phillippy AM, Bergman CM, Landolin JM. Kim KE, et al. Among authors: phillippy am. Sci Data. 2014 Nov 25;1:140045. doi: 10.1038/sdata.2014.45. eCollection 2014. Sci Data. 2014. PMID: 25977796 Free PMC article.
Molecular epidemiologic investigation of an anthrax outbreak among heroin users, Europe.
Price EP, Seymour ML, Sarovich DS, Latham J, Wolken SR, Mason J, Vincent G, Drees KP, Beckstrom-Sternberg SM, Phillippy AM, Koren S, Okinaka RT, Chung WK, Schupp JM, Wagner DM, Vipond R, Foster JT, Bergman NH, Burans J, Pearson T, Brooks T, Keim P. Price EP, et al. Among authors: phillippy am. Emerg Infect Dis. 2012 Aug;18(8):1307-13. doi: 10.3201/eid1808.111343. Emerg Infect Dis. 2012. PMID: 22840345 Free PMC article.
Automated ensemble assembly and validation of microbial genomes.
Koren S, Treangen TJ, Hill CM, Pop M, Phillippy AM. Koren S, et al. Among authors: phillippy am. BMC Bioinformatics. 2014 May 3;15:126. doi: 10.1186/1471-2105-15-126. BMC Bioinformatics. 2014. PMID: 24884846 Free PMC article.
154 results