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Fast algorithms for large-scale genome alignment and comparison.
Delcher AL, Phillippy A, Carlton J, Salzberg SL. Delcher AL, et al. Among authors: salzberg sl. Nucleic Acids Res. 2002 Jun 1;30(11):2478-83. doi: 10.1093/nar/30.11.2478. Nucleic Acids Res. 2002. PMID: 12034836 Free PMC article.
Hierarchical scaffolding with Bambus.
Pop M, Kosack DS, Salzberg SL. Pop M, et al. Among authors: salzberg sl. Genome Res. 2004 Jan;14(1):149-59. doi: 10.1101/gr.1536204. Genome Res. 2004. PMID: 14707177 Free PMC article.
Beware of mis-assembled genomes.
Salzberg SL, Yorke JA. Salzberg SL, et al. Bioinformatics. 2005 Dec 15;21(24):4320-1. doi: 10.1093/bioinformatics/bti769. Bioinformatics. 2005. PMID: 16332717 No abstract available.
Genome re-annotation: a wiki solution?
Salzberg SL. Salzberg SL. Genome Biol. 2007;8(1):102. doi: 10.1186/gb-2007-8-1-102. Genome Biol. 2007. PMID: 17274839 Free PMC article.
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, Anderson WW, Aquadro CF, Ardell DH, Arguello R, Artieri CG, Barbash DA, Barker D, Barsanti P, Batterham P, Batzoglou S, Begun D, Bhutkar A, Blanco E, Bosak SA, Bradley RK, Brand AD, Brent MR, Brooks AN, Brown RH, Butlin RK, Caggese C, Calvi BR, Bernardo de Carvalho A, Caspi A, Castrezana S, Celniker SE, Chang JL, Chapple C, Chatterji S, Chinwalla A, Civetta A, Clifton SW, Comeron JM, Costello JC, Coyne JA, Daub J, David RG, Delcher AL, Delehaunty K, Do CB, Ebling H, Edwards K, Eickbush T, Evans JD, Filipski A, Findeiss S, Freyhult E, Fulton L, Fulton R, Garcia AC, Gardiner A, Garfield DA, Garvin BE, Gibson G, Gilbert D, Gnerre S, Godfrey J, Good R, Gotea V, Gravely B, Greenberg AJ, Griffiths-Jones S, Gross S, Guigo R, Gustafson EA, Haerty W, Hahn MW, Halligan DL, Halpern AL, Halter GM, Han MV, Heger A, Hillier L, Hinrichs AS, Holmes I, Hoskins RA, Hubisz MJ, Hultmark D, Huntley MA, Jaffe DB, Jagadeeshan S, Jeck WR, Johnson J, Jones CD, Jordan WC, Ka… See abstract for full author list ➔ Drosophila 12 Genomes Consortium, et al. Among authors: salzberg sl. Nature. 2007 Nov 8;450(7167):203-18. doi: 10.1038/nature06341. Nature. 2007. PMID: 17994087
Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A.
Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, Aparna G, Jha G, Pandey A, Patil PB, Ishihara H, Meyer DF, Szurek B, Verdier V, Koebnik R, Dow JM, Ryan RP, Hirata H, Tsuyumu S, Won Lee S, Seo YS, Sriariyanum M, Ronald PC, Sonti RV, Van Sluys MA, Leach JE, White FF, Bogdanove AJ. Salzberg SL, et al. BMC Genomics. 2008 May 1;9:204. doi: 10.1186/1471-2164-9-204. BMC Genomics. 2008. PMID: 18452608 Free PMC article.
400 results