Gordon Robertson

Summary

Affiliation: British Columbia
Country: Canada

Publications

  1. pmc cisRED: a database system for genome-scale computational discovery of regulatory elements
    G Robertson
    Canada s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC, Canada
    Nucleic Acids Res 34:D68-73. 2006
  2. pmc Probabilistic inference for nucleosome positioning with MNase-based or sonicated short-read data
    Xuekui Zhang
    Statistics Department, University of British Columbia, Vancouver, British Columbia, Canada
    PLoS ONE 7:e32095. 2012
  3. doi request reprint Retinoblastoma-binding proteins 4 and 9 are important for human pluripotent stem cell maintenance
    Michael D O'Connor
    Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, BC, Canada
    Exp Hematol 39:866-79.e1. 2011
  4. pmc Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing
    Elizabeth D Wederell
    Terry Fox Laboratory, BC Cancer Agency, Vancouver, Canada
    Nucleic Acids Res 36:4549-64. 2008
  5. pmc Caenorhabditis elegans cisRED: a catalogue of conserved genomic elements
    Monica C Sleumer
    Canada s Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada
    Nucleic Acids Res 37:1323-34. 2009
  6. pmc The genome and transcriptome of the pine saprophyte Ophiostoma piceae, and a comparison with the bark beetle-associated pine pathogen Grosmannia clavigera
    Sajeet Haridas
    Department of Wood Science, University of British Columbia, Vancouver, BC, Canada
    BMC Genomics 14:373. 2013
  7. doi request reprint A specialized ABC efflux transporter GcABC-G1 confers monoterpene resistance to Grosmannia clavigera, a bark beetle-associated fungal pathogen of pine trees
    Ye Wang
    Department of Wood Sciences, University of British Columbia, Vancouver, BC, Canada, V6T1Z4
    New Phytol 197:886-98. 2013
  8. pmc Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen
    Scott DiGuistini
    Department of Wood Science, University of British Columbia, Vancouver, BC, Canada V6T 1Z4
    Proc Natl Acad Sci U S A 108:2504-9. 2011
  9. pmc Locus co-occupancy, nucleosome positioning, and H3K4me1 regulate the functionality of FOXA2-, HNF4A-, and PDX1-bound loci in islets and liver
    Brad G Hoffman
    Department of Cancer Endocrinology, British Columbia Cancer Agency, Vancouver, British Columbia V5Z 1L3, Canada
    Genome Res 20:1037-51. 2010
  10. doi request reprint Alternative expression analysis by RNA sequencing
    Malachi Griffith
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada
    Nat Methods 7:843-7. 2010

Collaborators

Detail Information

Publications20

  1. pmc cisRED: a database system for genome-scale computational discovery of regulatory elements
    G Robertson
    Canada s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC, Canada
    Nucleic Acids Res 34:D68-73. 2006
    ..The database offers information on atomic motifs, motif groups and patterns. It is web-accessible, and can be queried directly, downloaded or installed locally...
  2. pmc Probabilistic inference for nucleosome positioning with MNase-based or sonicated short-read data
    Xuekui Zhang
    Statistics Department, University of British Columbia, Vancouver, British Columbia, Canada
    PLoS ONE 7:e32095. 2012
    ....
  3. doi request reprint Retinoblastoma-binding proteins 4 and 9 are important for human pluripotent stem cell maintenance
    Michael D O'Connor
    Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, BC, Canada
    Exp Hematol 39:866-79.e1. 2011
    ..Here we sought to identify new candidate PS cell regulators to facilitate future improvements in their generation, expansion, and differentiation...
  4. pmc Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing
    Elizabeth D Wederell
    Terry Fox Laboratory, BC Cancer Agency, Vancouver, Canada
    Nucleic Acids Res 36:4549-64. 2008
    ..Our comprehensive results for in vivo Foxa2-binding sites in the mouse liver will contribute to resolving transcriptional regulatory networks that are important for adult liver function...
  5. pmc Caenorhabditis elegans cisRED: a catalogue of conserved genomic elements
    Monica C Sleumer
    Canada s Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, BC, Canada
    Nucleic Acids Res 37:1323-34. 2009
    ..The annotated motifs provide novel binding site candidates for both characterized transcription factors and orthologues of characterized mammalian transcription factors...
  6. pmc The genome and transcriptome of the pine saprophyte Ophiostoma piceae, and a comparison with the bark beetle-associated pine pathogen Grosmannia clavigera
    Sajeet Haridas
    Department of Wood Science, University of British Columbia, Vancouver, BC, Canada
    BMC Genomics 14:373. 2013
    ....
  7. doi request reprint A specialized ABC efflux transporter GcABC-G1 confers monoterpene resistance to Grosmannia clavigera, a bark beetle-associated fungal pathogen of pine trees
    Ye Wang
    Department of Wood Sciences, University of British Columbia, Vancouver, BC, Canada, V6T1Z4
    New Phytol 197:886-98. 2013
    ..This work has implications for understanding adaptation to host defences in an important forest insect-fungal system, and potentially for metabolic engineering of terpenoid production in yeast...
  8. pmc Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen
    Scott DiGuistini
    Department of Wood Science, University of British Columbia, Vancouver, BC, Canada V6T 1Z4
    Proc Natl Acad Sci U S A 108:2504-9. 2011
    ..This work is a major step toward understanding the biological interactions between the tripartite MPB/fungus/forest system...
  9. pmc Locus co-occupancy, nucleosome positioning, and H3K4me1 regulate the functionality of FOXA2-, HNF4A-, and PDX1-bound loci in islets and liver
    Brad G Hoffman
    Department of Cancer Endocrinology, British Columbia Cancer Agency, Vancouver, British Columbia V5Z 1L3, Canada
    Genome Res 20:1037-51. 2010
    ..Finally, we apply these approaches to generate novel insights into how FOXA2, PDX1, and HNF4A cooperate to drive islet- and liver-specific gene expression...
  10. doi request reprint Alternative expression analysis by RNA sequencing
    Malachi Griffith
    Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada
    Nat Methods 7:843-7. 2010
    ..Alternative expression annotation databases, source code, a data viewer and other resources to facilitate analysis are available at http://www.alexaplatform.org/alexa_seq/...
  11. ncbi request reprint Comparative genomics of the pine pathogens and beetle symbionts in the genus Grosmannia
    Sepideh Massoumi Alamouti
    Department of Wood Science, University of British Columbia, Vancouver, British Columbia, Canada
    Mol Biol Evol 31:1454-74. 2014
    ....
  12. pmc Barnacle: detecting and characterizing tandem duplications and fusions in transcriptome assemblies
    Lucas Swanson
    Canada s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada
    BMC Genomics 14:550. 2013
    ..Chimeric transcripts, including partial and internal tandem duplications (PTDs, ITDs) and gene fusions, are important in the detection, prognosis, and treatment of human cancers...
  13. doi request reprint De novo assembly and analysis of RNA-seq data
    Gordon Robertson
    Canada s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC, Canada
    Nat Methods 7:909-12. 2010
    ....
  14. pmc Gene discovery for the bark beetle-vectored fungal tree pathogen Grosmannia clavigera
    Uljana Hesse-Orce
    Department of Wood Science, University of British Columbia, Vancouver, Canada
    BMC Genomics 11:536. 2010
    ..Trees respond to attacks from beetles and associated fungi by releasing terpenoid and phenolic defense compounds. It is unclear which genes are important for G. clavigera's ability to overcome antifungal pine terpenoids and phenolics...
  15. doi request reprint PICS: probabilistic inference for ChIP-seq
    Xuekui Zhang
    Department of Statistics, University of British Columbia, Vancouver, BC, Canada
    Biometrics 67:151-63. 2011
    ..We then use a simulation study to confirm that PICS compares favorably to these methods and is robust to model misspecification...
  16. pmc De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data
    Scott DiGuistini
    Department of Wood Science, University of British Columbia, Vancouver, BC, V6T 1Z4, Canada
    Genome Biol 10:R94. 2009
    ..Our results demonstrate that eukaryotic genome sequences can be accurately assembled by combining Illumina, 454 and Sanger sequence data...
  17. pmc FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology
    Anthony P Fejes
    Genome Sciences Centre, BC Cancer Agency, Suite 100 570 West 7th Avenue, Vancouver, British Columbia, Canada
    Bioinformatics 24:1729-30. 2008
    ..Memory requirements are proportional to the number of sequencing reads analyzed; typically 4 GB permits processing of up to 40 million reads...
  18. pmc ORegAnno: an open-access community-driven resource for regulatory annotation
    Obi L Griffith
    Canada s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC V5Z 4S6, Canada
    Nucleic Acids Res 36:D107-13. 2008
    ..All data are freely available through search pages, XML data dumps or web services at: http://www.oreganno.org...
  19. ncbi request reprint A Notch-dependent transcriptional hierarchy promotes mesenchymal transdifferentiation in the cardiac cushion
    Alex C Y Chang
    Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, Canada
    Dev Dyn 243:894-905. 2014
    ..These novel signaling pathways downstream of Notch are potentially relevant to valve development. Developmental Dynamics 243:894-905, 2014. © 2014 Wiley Periodicals, Inc. ..
  20. pmc Cell of origin in AML: susceptibility to MN1-induced transformation is regulated by the MEIS1/AbdB-like HOX protein complex
    Michael Heuser
    Terry Fox Laboratory, British Columbia Cancer Agency, Vancouver, British Columbia, Canada
    Cancer Cell 20:39-52. 2011
    ..As MN1 relies on but cannot activate expression of MEIS1/AbdB-like HOX proteins, transcriptional activity of these genes determines cellular susceptibility to MN1-induced transformation and may represent a promising therapeutic target...