Samuel Levy

Summary

Affiliation: J. Craig Venter Institute
Country: USA

Publications

  1. pmc The diploid genome sequence of an individual human
    Samuel Levy
    J Craig Venter Institute, Rockville, Maryland, USA
    PLoS Biol 5:e254. 2007
  2. pmc Towards a comprehensive structural variation map of an individual human genome
    Andy W Pang
    Department of Molecular Genetics, University of Toronto, 1 King s College Circle, Toronto, Ontario M5S 1A8, Canada
    Genome Biol 11:R52. 2010
  3. pmc Evaluation of next generation sequencing platforms for population targeted sequencing studies
    Olivier Harismendy
    Scripps Genomic Medicine, Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, CA 92037, USA
    Genome Biol 10:R32. 2009
  4. pmc Genetic variation in an individual human exome
    Pauline C Ng
    J Craig Venter Institute, Rockville, Maryland, United States of America
    PLoS Genet 4:e1000160. 2008
  5. pmc The HuRef Browser: a web resource for individual human genomics
    Nelson Axelrod
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 37:D1018-24. 2009
  6. doi request reprint Consensus generation and variant detection by Celera Assembler
    Gennady Denisov
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    Bioinformatics 24:1035-40. 2008
  7. ncbi request reprint Environmental genome shotgun sequencing of the Sargasso Sea
    J Craig Venter
    Institute for Biological Energy Alternatives, 1901 Research Boulevard, Rockville, MD 20850, USA
    Science 304:66-74. 2004
  8. ncbi request reprint The dog genome: survey sequencing and comparative analysis
    Ewen F Kirkness
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Science 301:1898-903. 2003
  9. doi request reprint Emerging DNA sequencing technologies for human genomic medicine
    Robert L Strausberg
    J Craig Venter Institute, Rockville, MD 20850, USA
    Drug Discov Today 13:569-77. 2008
  10. pmc Novel computational methods for increasing PCR primer design effectiveness in directed sequencing
    Kelvin Li
    The J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Bioinformatics 9:191. 2008

Collaborators

Detail Information

Publications12

  1. pmc The diploid genome sequence of an individual human
    Samuel Levy
    J Craig Venter Institute, Rockville, Maryland, USA
    PLoS Biol 5:e254. 2007
    ..These data depict a definitive molecular portrait of a diploid human genome that provides a starting point for future genome comparisons and enables an era of individualized genomic information...
  2. pmc Towards a comprehensive structural variation map of an individual human genome
    Andy W Pang
    Department of Molecular Genetics, University of Toronto, 1 King s College Circle, Toronto, Ontario M5S 1A8, Canada
    Genome Biol 11:R52. 2010
    ..It is still unclear to what extent a typical genome differs from the reference assembly, and the analysis of the genomes sequenced to date have shown varying results for copy number variation (CNV) and inversions...
  3. pmc Evaluation of next generation sequencing platforms for population targeted sequencing studies
    Olivier Harismendy
    Scripps Genomic Medicine, Scripps Translational Science Institute, The Scripps Research Institute, La Jolla, CA 92037, USA
    Genome Biol 10:R32. 2009
    ..To evaluate these platforms for this application, we analyzed human sequence generated by the Roche 454, Illumina GA, and the ABI SOLiD technologies for the same 260 kb in four individuals...
  4. pmc Genetic variation in an individual human exome
    Pauline C Ng
    J Craig Venter Institute, Rockville, Maryland, United States of America
    PLoS Genet 4:e1000160. 2008
    ..We present an approach to analyze the coding variation in humans by proposing multiple bioinformatic methods to hone in on possible functional variation...
  5. pmc The HuRef Browser: a web resource for individual human genomics
    Nelson Axelrod
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 37:D1018-24. 2009
    ..The HuRef Browser is a unique and versatile tool for browsing genome assemblies and studying individual human sequence variation in a diploid context. The browser is available online at http://huref.jcvi.org...
  6. doi request reprint Consensus generation and variant detection by Celera Assembler
    Gennady Denisov
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    Bioinformatics 24:1035-40. 2008
    ..This algorithm was used to produce the first diploid genome sequence of an individual human. It can also be applied to assemblies of multiple diploid individuals and hybrid assemblies of multiple haploid organisms...
  7. ncbi request reprint Environmental genome shotgun sequencing of the Sargasso Sea
    J Craig Venter
    Institute for Biological Energy Alternatives, 1901 Research Boulevard, Rockville, MD 20850, USA
    Science 304:66-74. 2004
    ..2 million previously unknown genes represented in these samples, including more than 782 new rhodopsin-like photoreceptors. Variation in species present and stoichiometry suggests substantial oceanic microbial diversity...
  8. ncbi request reprint The dog genome: survey sequencing and comparative analysis
    Ewen F Kirkness
    The Institute for Genomic Research, Rockville, MD 20850, USA
    Science 301:1898-903. 2003
    ..A variety of polymorphic elements are identified that will be valuable for mapping the genetic basis of diseases and traits in the dog...
  9. doi request reprint Emerging DNA sequencing technologies for human genomic medicine
    Robert L Strausberg
    J Craig Venter Institute, Rockville, MD 20850, USA
    Drug Discov Today 13:569-77. 2008
    ....
  10. pmc Novel computational methods for increasing PCR primer design effectiveness in directed sequencing
    Kelvin Li
    The J, Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    BMC Bioinformatics 9:191. 2008
    ..This inefficient approach to primer design is further intensified in a high-throughput laboratory, where hundreds of genes may be targeted in one experiment...
  11. pmc Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line
    Qi Zhao
    J Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA
    Proc Natl Acad Sci U S A 106:1886-91. 2009
    ..This approach demonstrates that high-throughput transcriptome sequencing is an effective strategy for the characterization of genomic rearrangements in cancers...
  12. ncbi request reprint Promoting transcriptome diversity
    Robert L Strausberg
    The J Craig Venter Institute, Rockville, Maryland 20850, USA
    Genome Res 17:965-8. 2007
    ..Much attention is currently focused on understanding the role of alternative promoters in generating transcript diversity, both for non-protein-encoding (ncRNAs) and protein-encoding RNAs...