David R Kelley

Summary

Affiliation: University of Maryland
Country: USA

Publications

  1. ncbi Gene prediction with Glimmer for metagenomic sequences augmented by classification and clustering
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, Department of Computer Science, 3115 Biomolecular Sciences Building 296, University of Maryland, College Park, MD 20742, USA
    Nucleic Acids Res 40:e9. 2012
  2. ncbi Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A
    Steven L Salzberg
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Genomics 9:204. 2008
  3. ncbi Detection and correction of false segmental duplications caused by genome mis-assembly
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD 20742, USA
    Genome Biol 11:R28. 2010
  4. ncbi Clustering metagenomic sequences with interpolated Markov models
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, College Park, MD 20742, USA
    BMC Bioinformatics 11:544. 2010
  5. ncbi Quake: quality-aware detection and correction of sequencing errors
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, and Department of Computer Science, University of Maryland, College Park, MD 20742, USA
    Genome Biol 11:R116. 2010
  6. ncbi A whole-genome assembly of the domestic cow, Bos taurus
    Aleksey V Zimin
    Institute for Physical Science and Technology, University of Maryland, College Park, Maryland 20742, USA
    Genome Biol 10:R42. 2009
  7. ncbi Extracting between-pathway models from E-MAP interactions using expected graph compression
    David R Kelley
    Department of Computer Science and Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, USA
    J Comput Biol 18:379-90. 2011

Detail Information

Publications7

  1. ncbi Gene prediction with Glimmer for metagenomic sequences augmented by classification and clustering
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, Department of Computer Science, 3115 Biomolecular Sciences Building 296, University of Maryland, College Park, MD 20742, USA
    Nucleic Acids Res 40:e9. 2012
    ..In a comparison among multiple gene finding methods, Glimmer-MG makes the most sensitive and precise predictions on simulated and real metagenomes for all read lengths and error rates tested...
  2. ncbi Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A
    Steven L Salzberg
    Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD 20742, USA
    BMC Genomics 9:204. 2008
    ..We report here on the complete genome sequence of strain PXO99A and its comparison to two previously sequenced strains, KACC10331 and MAFF311018, which are highly similar to one another...
  3. ncbi Detection and correction of false segmental duplications caused by genome mis-assembly
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, University of Maryland, College Park, MD 20742, USA
    Genome Biol 11:R28. 2010
    ..For each genome, we corrected mis-assemblies, improved estimates of the amount of duplicated sequence, and recovered polymorphisms between the sequenced chromosomes...
  4. ncbi Clustering metagenomic sequences with interpolated Markov models
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, College Park, MD 20742, USA
    BMC Bioinformatics 11:544. 2010
    ..Many effective approaches to this task rely on sequenced genomes in public databases, but these genomes are a highly biased sample that is not necessarily representative of environments interesting to many metagenomics projects...
  5. ncbi Quake: quality-aware detection and correction of sequencing errors
    David R Kelley
    Center for Bioinformatics and Computational Biology, Institute for Advanced Computer Studies, and Department of Computer Science, University of Maryland, College Park, MD 20742, USA
    Genome Biol 11:R116. 2010
    ..Quake can be used for any size project, including more than one billion human reads, and is freely available as open source software from http://www.cbcb.umd.edu/software/quake...
  6. ncbi A whole-genome assembly of the domestic cow, Bos taurus
    Aleksey V Zimin
    Institute for Physical Science and Technology, University of Maryland, College Park, Maryland 20742, USA
    Genome Biol 10:R42. 2009
    ..The genome of the domestic cow, Bos taurus, was sequenced using a mixture of hierarchical and whole-genome shotgun sequencing methods...
  7. ncbi Extracting between-pathway models from E-MAP interactions using expected graph compression
    David R Kelley
    Department of Computer Science and Center for Bioinformatics and Computational Biology, University of Maryland, College Park, Maryland, USA
    J Comput Biol 18:379-90. 2011
    ..EGC also uncovers core submodules contained within several previously found modules, suggesting that EGC can reveal the finer structure of E-MAP networks...