Robert A Holt

Summary

Affiliation: Celera Genomics
Country: USA

Publications

  1. ncbi 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
  2. ncbi A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome
    Richard J Mural
    Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Science 296:1661-71. 2002
  3. ncbi A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation
    Colin T Kelleher
    Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3, Canada
    Plant J 50:1063-78. 2007
  4. ncbi Genomics of hybrid poplar (Populus trichocarpax deltoides) interacting with forest tent caterpillars (Malacosoma disstria): normalized and full-length cDNA libraries, expressed sequence tags, and a cDNA microarray for the study of insect-induced defences
    Steven Ralph
    Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada, V6T 1Z3
    Mol Ecol 15:1275-97. 2006
  5. ncbi A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis)
    Steven G Ralph
    Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada
    BMC Genomics 9:484. 2008
  6. ncbi Satellog: a database for the identification and prioritization of satellite repeats in disease association studies
    Perseus I Missirlis
    Genome Sciences Centre, BC Cancer Agency, Suite 100, 570 West 7th Ave, Vancouver, BC, V5Z 4S6, Canada
    BMC Bioinformatics 6:145. 2005
  7. ncbi High-throughput sequencing: a failure mode analysis
    George S Yang
    Canada s Michael Smith Genome Sciences Centre, BC Cancer Research Centre, Suite 100, 570 West 7th Avenue, Vancouver, BC, Canada
    BMC Genomics 6:2. 2005
  8. ncbi Systematic recovery and analysis of full-ORF human cDNA clones
    Agnes Baross
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, British Columbia, V5Z 4E6, Canada
    Genome Res 14:2083-92. 2004
  9. ncbi Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster
    Evgeny M Zdobnov
    European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Science 298:149-59. 2002
  10. ncbi 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 <http://www.hgsc.bcm.tmc.edu
    Nature 428:493-521. 2004

Detail Information

Publications29

  1. ncbi 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...
  2. ncbi A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome
    Richard J Mural
    Celera Genomics, 45 West Gude Drive, Rockville, MD 20850, USA
    Science 296:1661-71. 2002
    ....
  3. ncbi A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation
    Colin T Kelleher
    Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3, Canada
    Plant J 50:1063-78. 2007
    ....
  4. ncbi Genomics of hybrid poplar (Populus trichocarpax deltoides) interacting with forest tent caterpillars (Malacosoma disstria): normalized and full-length cDNA libraries, expressed sequence tags, and a cDNA microarray for the study of insect-induced defences
    Steven Ralph
    Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada, V6T 1Z3
    Mol Ecol 15:1275-97. 2006
    ..This study provides the first genome-scale approach to characterize insect-induced defences in a woody perennial providing a solid platform for functional investigation of plant-insect interactions in poplar...
  5. ncbi A conifer genomics resource of 200,000 spruce (Picea spp.) ESTs and 6,464 high-quality, sequence-finished full-length cDNAs for Sitka spruce (Picea sitchensis)
    Steven G Ralph
    Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada
    BMC Genomics 9:484. 2008
    ..Sequence-finished full-length (FL)cDNAs and large collections of expressed sequence tags (ESTs) are essential for gene discovery, functional genomics, and for future efforts of conifer genome annotation...
  6. ncbi Satellog: a database for the identification and prioritization of satellite repeats in disease association studies
    Perseus I Missirlis
    Genome Sciences Centre, BC Cancer Agency, Suite 100, 570 West 7th Ave, Vancouver, BC, V5Z 4S6, Canada
    BMC Bioinformatics 6:145. 2005
    ..Here we present Satellog, a database that catalogs all pure 1-16 repeat unit satellite repeats in the human genome along with supplementary data. Satellog analyzes each pure repeat in UniGene clusters for evidence of repeat polymorphism...
  7. ncbi High-throughput sequencing: a failure mode analysis
    George S Yang
    Canada s Michael Smith Genome Sciences Centre, BC Cancer Research Centre, Suite 100, 570 West 7th Avenue, Vancouver, BC, Canada
    BMC Genomics 6:2. 2005
    ..While high-throughput centres report failure rates typically on the order of 10%, the causes of sporadic sequencing failures are seldom analyzed in detail and have not, in the past, been formally reported...
  8. ncbi Systematic recovery and analysis of full-ORF human cDNA clones
    Agnes Baross
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, British Columbia, V5Z 4E6, Canada
    Genome Res 14:2083-92. 2004
    ..Clones containing novel splice variants or polymorphisms have also been identified. Our approach to clone recovery, applied at large scale, has the potential to recover many and possibly most of the genes absent from the MGC collection...
  9. ncbi Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster
    Evgeny M Zdobnov
    European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Science 298:149-59. 2002
    ....
  10. ncbi 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 <http://www.hgsc.bcm.tmc.edu
    Nature 428:493-521. 2004
    ....
  11. ncbi The Anopheles gambiae genome: an update
    Emmanuel Mongin
    Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA
    Trends Parasitol 20:49-52. 2004
    ..This article reviews progress and considers limitations in the current sequence assembly and gene annotation, as well as approaches to address these problems and outstanding issues that users of the data must bear in mind...
  12. ncbi The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)
    Daniela S Gerhard
    Genome Res 14:2121-7. 2004
    ..Recently, a rat cDNA component was added to the project, and ongoing frog (Xenopus) and zebrafish (Danio) cDNA projects were expanded to take advantage of the high-throughput MGC pipeline...
  13. ncbi CAG-encoded polyglutamine length polymorphism in the human genome
    Stefanie L Butland
    UBC Bioinformatics Centre, Michael Smith Laboratories, University of British Columbia, Vancouver, Canada
    BMC Genomics 8:126. 2007
    ....
  14. ncbi The molecular signature and cis-regulatory architecture of a C. elegans gustatory neuron
    John F Etchberger
    Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, NY 10032, USA
    Genes Dev 21:1653-74. 2007
    ..Taken together, our results provide a unique view of the molecular landscape of a single neuron type and reveal an important aspect of the regulatory logic for gustatory neuron specification in C. elegans...
  15. ncbi SP1 regulates a human SNAP-25 gene expression
    Fang Cai
    Department of Psychiatry, Brain Research Center, The University of British Columbia, Vancouver, British Columbia, Canada
    J Neurochem 105:512-23. 2008
    ..These results suggest that SP1 plays an important role in regulation of the human SNAP-25 gene expression...
  16. ncbi Analysis of 4,664 high-quality sequence-finished poplar full-length cDNA clones and their utility for the discovery of genes responding to insect feeding
    Steven G Ralph
    Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
    BMC Genomics 9:57. 2008
    ..Poplar has been established as a model system for genomics studies of growth, development, and adaptation of woody perennial plants including secondary xylem formation, dormancy, adaptation to local environments, and biotic interactions...
  17. ncbi The new paradigm of flow cell sequencing
    Robert A Holt
    British Columbia Cancer Agency, Genome Sciences Centre, Vancouver, British Columbia V5Z 4E6, Canada
    Genome Res 18:839-46. 2008
    ..Given the ever increasing demand for DNA sequence information, we can expect continuous improvement of this new generation of instruments and their eventual replacement by even more powerful technology...
  18. ncbi Identification of a set of genes showing regionally enriched expression in the mouse brain
    Cletus A D'Souza
    Genome Sciences Centre, British Columbia Cancer Agency, 570 West 7th Ave Suite 100, Vancouver, BC, V5Z 4E6, Canada
    BMC Neurosci 9:66. 2008
    ....
  19. ncbi Assembling millions of short DNA sequences using SSAKE
    Rene L Warren
    British Columbia Cancer Agency, Genome Sciences Centre, 675 West 10th Avenue, Vancouver, BC V5Z 1L3, Canada
    Bioinformatics 23:500-1. 2007
    ..Availability: http://www.bcgsc.ca/bioinfo/software/ssake...
  20. ncbi Oligonucleotide microarray analysis of genomic imbalance in children with mental retardation
    J M Friedman
    Department of Medical Genetics, University of British Columbia, Vancouver, British Columbia, Canada
    Am J Hum Genet 79:500-13. 2006
    ..This technology can detect at least twice as many potentially pathogenic de novo copy-number variants as conventional cytogenetic analysis can in people with mental retardation...
  21. ncbi Duplication and divergence of 2 distinct pancreatic ribonuclease genes in leaf-eating African and Asian colobine monkeys
    John E Schienman
    Department of Biological Sciences, University at Albany, State University of New York, USA
    Mol Biol Evol 23:1465-79. 2006
    ..Conclusions relating our data to general hypotheses of evolution following gene duplication are discussed...
  22. ncbi Sequencing and analysis of 10,967 full-length cDNA clones from Xenopus laevis and Xenopus tropicalis reveals post-tetraploidization transcriptome remodeling
    Ryan D Morin
    British Columbia Genome Sciences Centre, BCCA, Vancouver, BC V5Z 1L3 Canada
    Genome Res 16:796-803. 2006
    ..Approximately 14% of the paralogous pairs analyzed here also show differential expression indicative of subfunctionalization...
  23. ncbi The Genome sequence of the SARS-associated coronavirus
    Marco A Marra
    British Columbia Cancer Agency BCCA Genome Sciences Centre, 600 West 10th Avenue, Vancouver, British Columbia V5Z 4E6, Canada
    Science 300:1399-404. 2003
    ....
  24. ncbi A high-throughput screen identifying sequence and promiscuity characteristics of the loxP spacer region in Cre-mediated recombination
    Perseus I Missirlis
    Genome Sciences Centre, BC Cancer Agency, Suite 100, 570 West 7th Ave, Vancouver, BC, V5Z 4S6, Canada
    BMC Genomics 7:73. 2006
    ..In this study we introduce a high-throughput in vitro assay to rapidly detect novel loxP spacer mutants and describe the sequence characteristics of successful recombinants...
  25. ncbi Identification by full-coverage array CGH of human DNA copy number increases relative to chimpanzee and gorilla
    Gary M Wilson
    Canada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada V5Z 4S6
    Genome Res 16:173-81. 2006
    ..The observation of increased copy number of a human cluster of core histone genes suggests that altered dosage, even of highly constrained genes, may be an important evolutionary mechanism...
  26. ncbi Simple, robust methods for high-throughput nanoliter-scale DNA sequencing
    Duane E Smailus
    Canada's Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, British Columbia, Canada V5Z 4S6
    Genome Res 15:1447-50. 2005
    ..Implementation of these procedures at high-throughput genome centers could have a substantial impact on the amount of data that can be generated per unit cost...
  27. ncbi Analysis of long-lived C. elegans daf-2 mutants using serial analysis of gene expression
    Julius Halaschek-Wiener
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, British Columbia V5Z 1L3, Canada
    Genome Res 15:603-15. 2005
    ..Comparison of our results to recent microarray studies highlights sets of overlapping genes that are highly conserved throughout evolution and thus represent strong candidate genes that control aging and longevity...
  28. ncbi Novel avian influenza H7N3 strain outbreak, British Columbia
    Martin Hirst
    British Columbia Cancer Agency (BCCA) Genome Sciences Centre, Vancouver, British Columbia, Canada
    Emerg Infect Dis 10:2192-5. 2004
    ..This insertion likely occurred by recombination between the hemagglutination and matrix genes in the LPAI virus...
  29. ncbi DNA copy-number analysis in bipolar disorder and schizophrenia reveals aberrations in genes involved in glutamate signaling
    Gary M Wilson
    Canada s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Suite 100, 570 West 7th Avenue, Vancouver, BC, Canada V5Z 4S6
    Hum Mol Genet 15:743-9. 2006
    ..Further scrutiny of these regions may reveal insights into the etiology and genetic risk factors for these complex psychiatric disorders...