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Review
. 2010 Jan 28;11(1):202.
doi: 10.1186/gb-2010-11-1-202.

Assembling genomes using short-read sequencing technology

Affiliations
Review

Assembling genomes using short-read sequencing technology

Shaun D Jackman et al. Genome Biol. .

Abstract

Gigabase-scale genome assemblies are now feasible using short-read sequencing technology, bringing the cost of such projects below the million-dollar mark.

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Comment in

  • Rising in the East.
    Petsko GA. Petsko GA. Genome Biol. 2010 Jan 29;11(1):102. doi: 10.1186/gb-2010-11-1-102. Genome Biol. 2010. PMID: 20156314 Free PMC article.

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References

    1. Li R, Fan W, Tian G, Zhu H, He L, Cai J, Huang Q, Cai Q, Li B, Bai Y, Zhang Z, Zhang Y, Wang W, Li J, Wei F, Li H, Jian M, Li J, Zhang Z, Nielsen R, Li D, Gu W, Yang Z, Xuan Z, Ryder OA, Leung FC, Zhou Y, Cao J, Sun X, Fu Y. The sequence and de novo assembly of the giant panda genome. Nature. 2009;463:311–317. doi: 10.1038/nature08696. - DOI - PMC - PubMed
    1. Diguistini S, Liao NY, Platt D, Robertson G, Seidel M, Chan SK, Docking TR, Birol I, Holt RA, Hirst M, Mardis E, Marra MA, Hamelin RC, Bohlmann J, Breuil C, Jones SJ. De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data. Genome Biol. 2009;10:R94. doi: 10.1186/gb-2009-10-9-r94. - DOI - PMC - PubMed
    1. Schnable PS, Ware D, Fulton RS, Stein JC, Wei F, Pasternak S, Liang C, Zhang J, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du F, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B. The B73 maize genome: complexity, diversity, and dynamics. Science. 2009;326:1112–1115. doi: 10.1126/science.1178534. - DOI - PubMed
    1. 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, Vogel J, Andersson L, Antczak DF, Biagi T, Binns MM, Chowdhary BP, Coleman SJ, Della Valle G, Fryc S, Guérin G. Genome sequence, comparative analysis, and population genetics of the domestic horse. Science. 2009;326:865–867. doi: 10.1126/science.1178158. - DOI - PMC - PubMed
    1. Phrap. http://www.phrap.org/phredphrap/phrap.html

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