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9 Article(s) on File
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High-coverage sequencing and annotated assemblies of the budgerigar genome
Ganapathy G,
Howard JT,
Ward JM,
Li J,
Li B,
Li Y,
Xiong Y,
Zhang Y,
Zhou S,
Schwartz DC,
Schatz M,
Aboukhalil R,
Fedrigo O,
Bukovnik L,
Wang T,
Wray G,
Rasolonjatovo I,
Winer R,
Knight JR,
Koren S,
Warren WC,
Zhang G,
Phillippy AM,
Jarvis ED

  3 (0): 11; Jul 8 2014   Nlm
[DOI] [Full Text]

Hawkeye and AMOS: Visualizing and assessing the quality of genome assemblies
Schatz MC,
Phillippy AM,
Sommer DD,
Delcher AL,
Puiu D,
Narzisi G,
Salzberg SL,
Pop M

Briefings in Bioinformatics
  14 (2): 213-224; Mar 2013  
[DOI] [Full Text]

Hybrid error correction and de novo assembly of single-molecule sequencing reads
Koren S,
Schatz MC,
Walenz BP,
Martin J,
Howard JT,
Ganapathy G,
Wang Z,
Rasko DA,
McCombie WR,
Jarvis ED,
Phillippy AM

Nat Biotechnol
  30 (7): 693-700; Jul 1 2012   Nlm
[DOI] [Full Text]

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,
Marcais G,
Pop M,
Yorke JA

Genome Res
  22 (3): 557-67; Mar 2012   NLM
[DOI] [Full Text]

The rise of a digital immune system
Schatz MC,
Phillippy AM

  1 (1): 4; 2012   Nlm
[DOI] [Full Text]

Two New Complete Genome Sequences Offer Insight into Host and Tissue Specificity of Plant Pathogenic Xanthomonas spp
Bogdanove AJ,
Koebnik R,
Lu H,
Furutani A,
Angiuoli SV,
Patil PB,
Van Sluys MA,
Ryan RP,
Meyer DF,
Han SW,
Aparna G,
Rajaram M,
Delcher AL,
Phillippy AM,
Puiu D,
Schatz MC,
Shumway M,
Sommer DD,
Trapnell C,
Benahmed F,
Dimitrov G,
Madupu R,
Radune D,
Sullivan S,
Jha G,
Ishihara H,
Lee SW,
Pandey A,
Sharma V,
Sriariyanun M,
Szurek B,
Vera-Cruz CM,
Dorman KS,
Ronald PC,
Verdier V,
Dow JM,
Sonti RV,
Tsuge S,
Brendel VP,
Rabinowicz PD,
Leach JE,
White FF,
Salzberg SL

Journal of Bacteriology
  193 (19): 5450-5464; Oct 2011   PMC3187462

Assemblathon 1: A competitive assessment of de novo short read assembly methods
Earl D,
Bradnam K,
St. John J,
Darling A,
Lin D,
Fass J,
Yu HO,
Buffalo V,
Zerbino DR,
Diekhans M,
Nguyen N,
Ariyaratne PN,
Sung WK,
Ning Z,
Haimel M,
Simpson JT,
Fonseca NA,
Birol I,
Docking TR,
Ho IY,
Rokhsar DS,
Chikhi R,
Lavenier D,
Chapuis G,
Naquin D,
Maillet N,
Schatz MC,
Kelley DR,
Phillippy AM,
Koren S,
Yang SP,
Wu W,
Chou WC,
Srivastava A,
Shaw TI,
Ruby JG,
Skewes-Cox P,
Betegon M,
Dimon MT,
Solovyev V,
Seledtsov I,
Kosarev P,
Vorobyev D,
Ramirez-Gonzalez R,
Leggett R,
MacLean D,
Xia F,
Luo R,
Li Z,
Xie Y,
Liu B,
Gnerre S,
MacCallum I,
Przybylski D,
Ribeiro FJ,
Sharpe T,
Hall G,
Kersey PJ,
Durbin R,
Jackman SD,
Chapman JA,
Huang X,
DeRisi JL,
Caccamo M,
Li Y,
Jaffe DB,
Green RE,
Haussler D,
Korf I,
Paten B

Genome Research
  21 (12): 2224-2241; 2011  
[DOI] [Full Text]

Complex microbiome underlying secondary and primary metabolism in the tunicate-Prochloron symbiosis
Donia MS,
Fricke WF,
Partensky F,
Cox J,
Elshahawi SI,
White JR,
Phillippy AM,
Schatz MC,
Piel J,
Haygood MG,
Ravel J,
Schmidt EW

Proceedings of the National Academy of Sciences of the United States of America
  108 (51): E1423-E1432; 2011  
[DOI] [Full Text]

Integrated microbial survey analysis of prokaryotic communities for the PhyloChip microarray
Schatz MC,
Phillippy AM,
Gajer P,
DeSantis TZ,
Andersen GL,
Ravel J

Applied and Environmental Microbiology
  76 (16): 5636-5638; 2010  
[DOI] [Full Text]

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