Shaying Zhao

Summary

Affiliation: The Institute for Genomic Research
Country: USA

Publications

  1. pmc Using comparative genomics to reorder the human genome sequence into a virtual sheep genome
    Brian P Dalrymple
    CSIRO Livestock Industries, Carmody Road, St Lucia, Queensland 4067, Australia
    Genome Biol 8:R152. 2007
  2. pmc Human, mouse, and rat genome large-scale rearrangements: stability versus speciation
    Shaying Zhao
    Institute for Genomic Research, Rockville, Maryland 20850, USA
    Genome Res 14:1851-60. 2004
  3. pmc Human BAC ends
    S Zhao
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 28:129-32. 2000
  4. pmc Mouse BAC ends quality assessment and sequence analyses
    S Zhao
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Genome Res 11:1736-45. 2001
  5. pmc A comprehensive BAC resource
    S Zhao
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 29:141-3. 2001
  6. ncbi request reprint The genome sequence of the malaria mosquito Anopheles gambiae
    Robert A Holt
    Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Science 298:129-49. 2002
  7. ncbi request reprint The sequence of the human genome
    J C Venter
    Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Science 291:1304-51. 2001
  8. ncbi request reprint A physical map of the mouse genome
    Simon G Gregory
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    Nature 418:743-50. 2002
  9. pmc Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome
    Martin Krzywinski
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada V5Z 4E6
    Genome Res 14:766-79. 2004
  10. pmc Lineage-specific expansions of retroviral insertions within the genomes of African great apes but not humans and orangutans
    Chris T Yohn
    Department of Genetics, Case Western Reserve University, Cleveland, Ohio, USA
    PLoS Biol 3:e110. 2005

Detail Information

Publications22

  1. pmc Using comparative genomics to reorder the human genome sequence into a virtual sheep genome
    Brian P Dalrymple
    CSIRO Livestock Industries, Carmody Road, St Lucia, Queensland 4067, Australia
    Genome Biol 8:R152. 2007
    ..Is it possible to construct an accurate and detailed subgene-level map of a genome using bacterial artificial chromosome (BAC) end sequences, a sparse marker map, and the sequences of other genomes?..
  2. pmc Human, mouse, and rat genome large-scale rearrangements: stability versus speciation
    Shaying Zhao
    Institute for Genomic Research, Rockville, Maryland 20850, USA
    Genome Res 14:1851-60. 2004
    ....
  3. pmc Human BAC ends
    S Zhao
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 28:129-32. 2000
    ..The database is freely accessible via the web and supports sequence or clone searches and anonymous FTP. The relevant sites and resources are described at http://www.tigr.org/ tdb/humgen/bac_end_search/bac_end_intro.html..
  4. pmc Mouse BAC ends quality assessment and sequence analyses
    S Zhao
    The Institute for Genomic Research, Rockville, Maryland 20850, USA
    Genome Res 11:1736-45. 2001
    ..1% mBESs contain STSs. About 0.2% mBESs match human finished sequences and > 70% of these sequences have EST hits. The analyses indicate that our high-quality mouse BAC end sequences will be a valuable resource to the community...
  5. pmc A comprehensive BAC resource
    S Zhao
    The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA
    Nucleic Acids Res 29:141-3. 2001
    ..The current database contains 635 016 human BACs and 265 617 mouse BACs that were characterized by various approaches, among which 22 705 human clones and 1000 mouse clones have sequence and annotation data...
  6. ncbi request reprint The genome sequence of the malaria mosquito Anopheles gambiae
    Robert A Holt
    Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Science 298:129-49. 2002
    ..An expressed sequence tag analysis of genes regulated by blood feeding provided insights into the physiological adaptations of a hematophagous insect...
  7. ncbi request reprint The sequence of the human genome
    J C Venter
    Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Science 291:1304-51. 2001
    ..Less than 1% of all SNPs resulted in variation in proteins, but the task of determining which SNPs have functional consequences remains an open challenge...
  8. ncbi request reprint A physical map of the mouse genome
    Simon G Gregory
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
    Nature 418:743-50. 2002
    ..The human sequence may be used to facilitate construction of other mammalian genome maps using the same strategy...
  9. pmc Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome
    Martin Krzywinski
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada V5Z 4E6
    Genome Res 14:766-79. 2004
    ..The fingerprint map is a high-resolution integrative data resource that provides genome-ordered associations among BAC, YAC, and PAC clones and the assembled sequence of the rat genome...
  10. pmc Lineage-specific expansions of retroviral insertions within the genomes of African great apes but not humans and orangutans
    Chris T Yohn
    Department of Genetics, Case Western Reserve University, Cleveland, Ohio, USA
    PLoS Biol 3:e110. 2005
    ..We speculate on the potential impact of such recent events on the evolution of humans and great apes...
  11. pmc A preliminary comparative analysis of primate segmental duplications shows elevated substitution rates and a great-ape expansion of intrachromosomal duplications
    Xinwei She
    Department of Genome Sciences, University of Washington School of Medicine, Seattle, Washington 98195, USA
    Genome Res 16:576-83. 2006
    ..These architectural shifts in genomic structure and elevated substitution rates have important implications for the emergence of new genes, gene-expression differences, and structural variation among humans and great apes...
  12. pmc Phylogenomics of nonavian reptiles and the structure of the ancestral amniote genome
    Andrew M Shedlock
    Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, 26 Oxford Street, Cambridge, MA 02138, USA
    Proc Natl Acad Sci U S A 104:2767-72. 2007
    ..The sequences reported in this paper have been deposited in the GenBank database (accession nos. CZ 250707-CZ 257443 and DX 390731-DX 389174)...
  13. pmc A physical map of the bovine genome
    Warren M Snelling
    USDA, ARS, US Meat Animal Research Center, Clay Center, NE 68933, USA
    Genome Biol 8:R165. 2007
    ..The BAC libraries and clone maps are essential for the hybrid clone-by-clone/whole-genome shotgun sequencing approach taken by the bovine genome sequencing project...
  14. pmc A set of BAC clones spanning the human genome
    Martin Krzywinski
    BC Cancer Agency Genome Sciences Center and BC Cancer Agency, Vancouver, BC V5Z 4E6, Canada
    Nucleic Acids Res 32:3651-60. 2004
    ..We have made the clone set publicly available, anticipating that it will generally facilitate FISH or array-CGH-based identification and characterization of chromosomal alterations relevant to disease...
  15. pmc BAC resources for the rat genome project
    Kazutoyo Osoegawa
    Children s Hospital and Research Center at Oakland, Oakland, California 94609, USA
    Genome Res 14:780-5. 2004
    ....
  16. ncbi request reprint Genome sequence of the Brown Norway rat yields insights into mammalian evolution
    Richard A Gibbs
    Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA lt http www hgsc bcm tmc edu
    Nature 428:493-521. 2004
    ....
  17. ncbi request reprint A SNP map of the rat genome generated from cDNA sequences
    Heike Zimdahl
    Max Delbrück Center for Molecular Medicine MDC, Robert Rossle Str 10, 13092 Berlin Buch, Germany
    Science 303:807. 2004
  18. pmc 1-Mb resolution array-based comparative genomic hybridization using a BAC clone set optimized for cancer gene analysis
    Joel Greshock
    Abramson Family Cancer Research Institute, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
    Genome Res 14:179-87. 2004
    ..These resources should greatly facilitate the use of aCGH in gene discovery...
  19. pmc End-sequence profiling: sequence-based analysis of aberrant genomes
    Stanislav Volik
    Cancer Research Institute and Department of Laboratory Medicine, University of California Comprehensive Cancer Center, 2340 Sutter Street, San Francisco, CA 94115, USA
    Proc Natl Acad Sci U S A 100:7696-701. 2003
    ....
  20. pmc Segments missing from the draft human genome sequence can be isolated by transformation-associated recombination cloning in yeast
    Natalay Kouprina
    Laboratory of Biosystems and Cancer, National Cancer Institute, Building 37, Room 5031, Bethesda, Maryland 20892, USA
    EMBO Rep 4:257-62. 2003
    ..coli. These results show that TAR cloning might be a valuable method that could be widely used during the final stages of the Human Genome Project...
  21. pmc Analysis of primate genomic variation reveals a repeat-driven expansion of the human genome
    Ge Liu
    Department of Genetics, Case Western Reserve University School of Medicine and University Hospitals of Cleveland, Cleveland, Ohio 44106, USA
    Genome Res 13:358-68. 2003
    ..Assuming that the primate genome sequence we have sampled is representative, we estimate that human euchromatin has expanded 30 Mb and 550 Mb compared to the primate genomes of chimpanzee and lemur, respectively...
  22. pmc DA and Xiao-two giant and composite LTR-retrotransposon-like elements identified in the human genome
    Xinglai Ji
    Department of Biochemistry and Molecular Biology, Institute of Bioinformatics, University of Georgia, Athens, GA 30602 7229, USA
    Genomics 91:249-58. 2008
    ..4 kb. DA/Xiao was identified in 30 loci on 12 chromosomes, and only DAs mediated intrachromosomal rearrangements, based on our reconstructed human-mouse-rat ancestral genome and the rhesus macaque genome...