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2012
De novo assembly of highly diverse viral populations.Yang, X., Charlebois P., Gnerre S., Coole MG, Lennon NJ, Levin JZ, Qu J., Ryan EM, Zody MC, and Henn MR BMC genomics, 2012/09/13, Volume 13, p.475, (2012) Read More / View Supplemental Materials
Abstract
Finished bacterial genomes from shotgun sequence data.Ribeiro, F., Przybylski D., Yin S., Sharpe T., Gnerre S., Abouelleil A., Berlin AM, Montmayeur A., Shea TP, Walker BJ, Young SK, Russ C., Maccallum I., Nusbaum C., and Jaffe DB Genome research, 2012/07/24, (2012) Read More / View Supplemental Materials
Abstract
Whole Genome Deep Sequencing of HIV-1 Reveals the Impact of Early Minor Variants Upon Immune Recognition During Acute Infection.Henn, MR, Boutwell CL, Charlebois P., Lennon NJ, Power KA, Macalalad AR, Berlin AM, Malboeuf CM, Ryan EM, Gnerre S., Zody MC, Erlich RL, Green LM, Berical A., Wang Y., Casali M., Streeck H., Bloom AK, Dudek T., Tully D., et al. PLoS pathogens, 2012/03/01, Volume 8, Issue 3, p.e1002529, (2012) Read More / View Supplemental Materials
Abstract
Assisted assembly: how to improve a de novo genome assembly by using related species.Gnerre, S., Lander E. S., Lindblad-Toh K., and Jaffe DB Genome biology, 2012/01/09, Volume 10, Issue 8, p.R88, (2012) Read More / View Supplemental Materials
Abstract
Genome variation in Cryptococcus gattii, an emerging pathogen of immunocompetent hosts.D'Souza, CA, Kronstad JW, Taylor G., Warren R., Yuen M., Hu G., Jung WH, Sham A., Kidd SE, Tangen K., Lee N., Zeilmaker T., Sawkins J., McVicker G., Shah S., Gnerre S., Griggs A., Zeng Q., Bartlett K., Li W., et al. mBio, 2012/01/06, Volume 2, Issue 1, p.e00342-10, (2012) Read More / View Supplemental Materials
Abstract
2011
A high-resolution map of human evolutionary constraint using 29 mammals.Lindblad-Toh, K., Garber M., Zuk O., Lin MF, Parker BJ, Washietl S., Kheradpour P., Ernst J., Jordan G., Mauceli E., Ward LD, Lowe CB, Holloway AK, Clamp M., Gnerre S., Alföldi J., Beal K., Chang J., Clawson H., Cuff J., et al. Nature, 2011/10/12, Volume 478, Issue 7370, p.476-82, (2011) Read More / View Supplemental Materials
Abstract
High-quality draft assemblies of mammalian genomes from massively parallel sequence data.Gnerre, S., Maccallum I., Przybylski D., Ribeiro FJ, Burton JN, Walker BJ, Sharpe T., Hall G., Shea TP, Sykes S., Berlin AM, Aird D., Costello M., Daza R., Williams L., Nicol R., Gnirke A., Nusbaum C., Lander E. S., and Jaffe DB Proceedings of the National Academy of Sciences of the United States of America, 2011/01/25, Volume 108, Issue 4, p.1513-8, (2011) Read More / View Supplemental Materials
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2009
Genome sequence, comparative analysis, and population genetics of the domestic horse.Wade, CM, Giulotto E., Sigurdsson S., Zoli M., Gnerre S., Imsland F., Lear TL, Adelson DL, Bailey E., Bellone RR, Blöcker H., Distl O., Edgar RC, Garber M., Leeb T., Mauceli E., MacLeod JN, Penedo MC, Raison JM, Sharpe T., et al. Science (New York, N.Y.), 2009/11/06, Volume 326, Issue 5954, p.865-7, (2009) Read More / View Supplemental Materials
Abstract
Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans.Haas, BJ, Kamoun S., Zody MC, Jiang RH, Handsaker RE, Cano LM, Grabherr M., Kodira CD, Raffaele S., Torto-Alalibo T., Bozkurt TO, Ah-Fong AM, Alvarado L., Anderson VL, Armstrong MR, Avrova A., Baxter L., Beynon J., Boevink PC, Bollmann SR, et al. Nature, 2009/09/17, Volume 461, Issue 7262, p.393-8, (2009) Read More / View Supplemental Materials
Abstract
ALLPATHS 2: small genomes assembled accurately and with high continuity from short paired reads.Maccallum, I., Przybylski D., Gnerre S., Burton J., Shlyakhter I., Gnirke A., Malek J., McKernan K., Ranade S., Shea TP, Williams L., Young S., Nusbaum C., and Jaffe DB Genome biology, 2009/01/01, Volume 10, Issue 10, p.R103, (2009) Read More / View Supplemental Materials
Abstract
Closing gaps in the human genome using sequencing by synthesis.Garber, M., Zody MC, Arachchi HM, Berlin A., Gnerre S., Green LM, Lennon N., and Nusbaum C. Genome biology, 2009/01/01, Volume 10, Issue 6, p.R60, (2009) Read More / View Supplemental Materials
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2007
Evolution of genes and genomes on the Drosophila phylogeny.Drosophila 12 Genomes, Consortium, Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B., Markow TA, Kaufman TC, Kellis M., Gelbart W., Iyer VN, Pollard DA, Sackton TB, Larracuente AM, Singh ND, Abad JP, Abt DN, Adryan B., Aguade M., Akashi H., et al. Nature, 2007/11/08, Volume 450, Issue 7167, p.203-18, (2007) Read More / View Supplemental Materials
Abstract
The Fusarium graminearum genome reveals a link between localized polymorphism and pathogen specialization.Cuomo, CA, Güldener U., Xu JR, Trail F., Turgeon BG, Di Pietro A., Walton JD, Ma LJ, Baker SE, Rep M., Adam G., Antoniw J., Baldwin T., Calvo S., Chang YL, DeCaprio D., Gale LR, Gnerre S., Goswami RS, Hammond-Kosack K., et al. Science (New York, N.Y.), 2007/09/07, Volume 317, Issue 5843, p.1400-2, (2007) Read More / View Supplemental Materials
Abstract
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.ENCODE Project, Consortium, Birney E., Stamatoyannopoulos JA, Dutta A., Guigó R., Gingeras TR, Margulies EH, Weng Z., Snyder M., Dermitzakis ET, Thurman RE, Kuehn MS, Taylor CM, Neph S., Koch CM, Asthana S., Malhotra A., Adzhubei I., Greenbaum JA, Andrews RM, et al. Nature, 2007/06/14, Volume 447, Issue 7146, p.799-816, (2007) Read More / View Supplemental Materials
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Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.Margulies, EH, Cooper GM, Asimenos G., Thomas DJ, Dewey CN, Siepel A., Birney E., Keefe D., Schwartz AS, Hou M., Taylor J., Nikolaev S., Montoya-Burgos JI, Löytynoja A., Whelan S., Pardi F., Massingham T., Brown JB, Bickel P., Holmes I., et al. Genome research, 2007/06/01, Volume 17, Issue 6, p.760-74, (2007) Read More / View Supplemental Materials
Abstract
A genome-wide map of diversity in Plasmodium falciparum.Volkman, SK, Sabeti PC, DeCaprio D., Neafsey DE, Schaffner SF, Milner DA Jr, Daily JP, Sarr O., Ndiaye D., Ndir O., Mboup S., Duraisingh MT, Lukens A., Derr A., Stange-Thomann N., Waggoner S., Onofrio R., Ziaugra L., Mauceli E., Gnerre S., et al. Nature genetics, 2007/01/01, Volume 39, Issue 1, p.113-9, (2007) Read More / View Supplemental Materials
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2006
Genetic evidence for complex speciation of humans and chimpanzees.Patterson, N., Richter DJ, Gnerre S., Lander E. S., and Reich D. Nature, 2006/06/29, Volume 441, Issue 7097, p.1103-8, (2006) Read More / View Supplemental Materials
Abstract
DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage.Zody, MC, Garber M., Adams DJ, Sharpe T., Harrow J., Lupski JR, Nicholson C., Searle SM, Wilming L., Young SK, Abouelleil A., Allen NR, Bi W., Bloom T., Borowsky ML, Bugalter BE, Butler J., Chang JL, Chen CK, Cook A., et al. Nature, 2006/04/20, Volume 440, Issue 7087, p.1045-9, (2006) Read More / View Supplemental Materials
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2005
Genome sequence, comparative analysis and haplotype structure of the domestic dog.Lindblad-Toh, K., Wade CM, Mikkelsen TS, Karlsson EK, Jaffe DB, Kamal M., Clamp M., Chang JL, Kulbokas EJ 3rd, Zody MC, Mauceli E., Xie X., Breen M., Wayne RK, Ostrander EA, Ponting CP, Galibert F., Smith DR, de Jong PJ, Kirkness E., et al. Nature, 2005/12/08, Volume 438, Issue 7069, p.803-19, (2005) Read More / View Supplemental Materials
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  • Showing 1-19 of 19 Results