Martin Krzywinski

Summary

Affiliation: British Columbia
Country: Canada

Publications

  1. 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
  2. doi request reprint Hive plots--rational approach to visualizing networks
    Martin Krzywinski
    BC Cancer Research Center, Vancouver, Canada
    Brief Bioinform 13:627-44. 2012
  3. pmc Circos: an information aesthetic for comparative genomics
    Martin Krzywinski
    Canada s Michael Smith Genome Sciences Center, Vancouver, British Columbia V5Z 4S6, Canada
    Genome Res 19:1639-45. 2009
  4. pmc A BAC clone fingerprinting approach to the detection of human genome rearrangements
    Martin Krzywinski
    BC Cancer Agency Genome Sciences Centre, West 7th Avenue, Vancouver, British Columbia, Canada V5Z 4S6
    Genome Biol 8:R224. 2007
  5. 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
  6. ncbi request reprint Automated ordering of fingerprinted clones
    Stephane Flibotte
    Genome Sciences Centre, British Columbia Cancer Research Centre, Vancouver, BC Canada, V5Z 4E6
    Bioinformatics 20:1264-71. 2004
  7. 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
  8. pmc Physical map-assisted whole-genome shotgun sequence assemblies
    Rene L Warren
    British Columbia Cancer Agency, Genome Sciences Centre, Vancouver, British Columbia V5Z 4S6, Canada
    Genome Res 16:768-75. 2006
  9. doi request reprint Sequence variant discovery in DNA repair genes from radiosensitive and radiotolerant prostate brachytherapy patients
    Trevor J Pugh
    Genome Sciences Centre, Provincial Prostate Brachytherapy Program, and Medical Biophysics, British Columbia Cancer Agency, Vancouver, British Columbia, Canada
    Clin Cancer Res 15:5008-16. 2009
  10. doi request reprint Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively parallel short-read sequencing
    Ryan Morin
    Genome Sciences Centre, BC Cancer Agency, Vancouver, British Columbia, Canada
    Biotechniques 45:81-94. 2008

Detail Information

Publications17

  1. 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...
  2. doi request reprint Hive plots--rational approach to visualizing networks
    Martin Krzywinski
    BC Cancer Research Center, Vancouver, Canada
    Brief Bioinform 13:627-44. 2012
    ..The method is computationally straightforward, scales well and is amenable to a plugin for existing tools...
  3. pmc Circos: an information aesthetic for comparative genomics
    Martin Krzywinski
    Canada s Michael Smith Genome Sciences Center, Vancouver, British Columbia V5Z 4S6, Canada
    Genome Res 19:1639-45. 2009
    ....
  4. pmc A BAC clone fingerprinting approach to the detection of human genome rearrangements
    Martin Krzywinski
    BC Cancer Agency Genome Sciences Centre, West 7th Avenue, Vancouver, British Columbia, Canada V5Z 4S6
    Genome Biol 8:R224. 2007
    ..Our method has compelling potential for use as a whole-genome method for the identification and characterization of human genome rearrangements...
  5. 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...
  6. ncbi request reprint Automated ordering of fingerprinted clones
    Stephane Flibotte
    Genome Sciences Centre, British Columbia Cancer Research Centre, Vancouver, BC Canada, V5Z 4E6
    Bioinformatics 20:1264-71. 2004
    ..A considerable amount of human intervention is currently required to produce high-quality fingerprint-based physical maps for genomic studies...
  7. 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...
  8. pmc Physical map-assisted whole-genome shotgun sequence assemblies
    Rene L Warren
    British Columbia Cancer Agency, Genome Sciences Centre, Vancouver, British Columbia V5Z 4S6, Canada
    Genome Res 16:768-75. 2006
    ..A 6.5-fold coverage draft DNA sequence of the Pan troglodytes (chimpanzee) genome was assembled using map-derived constraints and resulted in a 26.1% increase in scaffold contiguity...
  9. doi request reprint Sequence variant discovery in DNA repair genes from radiosensitive and radiotolerant prostate brachytherapy patients
    Trevor J Pugh
    Genome Sciences Centre, Provincial Prostate Brachytherapy Program, and Medical Biophysics, British Columbia Cancer Agency, Vancouver, British Columbia, Canada
    Clin Cancer Res 15:5008-16. 2009
    ..We investigated whether variants in genes responsible for detecting and repairing DNA damage independently contribute to toxicity following prostate brachytherapy...
  10. doi request reprint Profiling the HeLa S3 transcriptome using randomly primed cDNA and massively parallel short-read sequencing
    Ryan Morin
    Genome Sciences Centre, BC Cancer Agency, Vancouver, British Columbia, Canada
    Biotechniques 45:81-94. 2008
    ..Analysis of these variants, and previously unannotated splicing events in the HeLa S3 cell line, reveals an overrepresentation of gene categories including those previously implicated in cancer...
  11. pmc Frequent mutation of histone-modifying genes in non-Hodgkin lymphoma
    Ryan D Morin
    Canada s Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, British Columbia V5Z 1L3, Canada
    Nature 476:298-303. 2011
    ..Our analysis suggests a previously unappreciated disruption of chromatin biology in lymphomagenesis...
  12. pmc 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...
  13. pmc Fusobacterium nucleatum infection is prevalent in human colorectal carcinoma
    Mauro Castellarin
    BC Cancer Agency, Michael Smith Genome Sciences Centre, Vancouver, British Columbia V5Z 1L3, Canada
    Genome Res 22:299-306. 2012
    ..5 × 10(-6)), and we observed a positive association with lymph node metastasis...
  14. pmc Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding
    A Gordon Robertson
    BC Cancer Agency Genome Sciences Centre, Vancouver, Canada
    Genome Res 18:1906-17. 2008
    ....
  15. 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...
  16. ncbi request reprint A physical map of the chicken genome
    John W Wallis
    Genome Sequencing Center, Washington University School of Medicine, Campus Box 8501, 4444 Forest Park Avenue, St Louis, Missouri 63108, USA
    Nature 432:761-4. 2004
    ..This map represents approximately 91% of the chicken genome and enables identification of chicken clones aligned to positions in other sequenced genomes...
  17. 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
    ....