Samuel Levy

Summary

Affiliation: Celera Genomics
Country: USA

Publications

  1. ncbi Identification of transcription factor binding sites in the human genome sequence
    Samuel Levy
    Informatics Research, Celera Corporation, Rockville, Maryland 20850, USA
    Mamm Genome 13:510-4. 2002
  2. doi 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
  3. 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
  4. ncbi Transcriptional regulation of protein complexes and biological pathways
    Sridhar Hannenhalli
    Informatics Research, Celera Genomics, 45 West Gude Drive, Rockville, Maryland 20850, USA
    Mamm Genome 14:611-9. 2003
  5. pmc The diploid genome sequence of an individual human
    Samuel Levy
    J Craig Venter Institute, Rockville, Maryland, USA
    PLoS Biol 5:e254. 2007
  6. ncbi 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
  7. pmc Predicting transcription factor synergism
    Sridhar Hannenhalli
    Informatics Research, Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 30:4278-84. 2002
  8. doi 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
  9. 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
  10. ncbi Promoting transcriptome diversity
    Robert L Strausberg
    The J Craig Venter Institute, Rockville, Maryland 20850, USA
    Genome Res 17:965-8. 2007

Detail Information

Publications14

  1. ncbi Identification of transcription factor binding sites in the human genome sequence
    Samuel Levy
    Informatics Research, Celera Corporation, Rockville, Maryland 20850, USA
    Mamm Genome 13:510-4. 2002
    ....
  2. doi 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...
  3. 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...
  4. ncbi Transcriptional regulation of protein complexes and biological pathways
    Sridhar Hannenhalli
    Informatics Research, Celera Genomics, 45 West Gude Drive, Rockville, Maryland 20850, USA
    Mamm Genome 14:611-9. 2003
    ..This suggests a novel computational methodology for constructing high-order gene regulatory models and detecting co-regulated gene products...
  5. 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...
  6. ncbi 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...
  7. pmc Predicting transcription factor synergism
    Sridhar Hannenhalli
    Informatics Research, Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 30:4278-84. 2002
    ..Further investigation of 50 pairs randomly selected from each of these two sets using PubMed queries provided additional supporting evidence from the existing biological literature suggesting TF synergism for these novel pairs...
  8. doi 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
    ....
  9. 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...
  10. ncbi 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...
  11. ncbi 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...
  12. 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...
  13. pmc Sequence survey of receptor tyrosine kinases reveals mutations in glioblastomas
    Vikki Rand
    Department of Neurosurgery, Johns Hopkins University School of Medicine, 5200 Eastern Avenue, Baltimore, MD 21224, USA
    Proc Natl Acad Sci U S A 102:14344-9. 2005
    ..Our results demonstrate the utility of applying DNA sequencing technology to systematically assess the coding sequence of genes within cancer genomes...
  14. 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...