Vardhman K Rakyan

Summary

Affiliation: Queen Mary
Country: UK

Publications

  1. pmc DNA methylation profiling of human chromosomes 6, 20 and 22
    Florian Eckhardt
    Epigenomics AG, Kleine Präsidentstrasse 1, 10178 Berlin, Germany
    Nat Genet 38:1378-85. 2006
  2. doi request reprint The methylome: approaches for global DNA methylation profiling
    Stephan Beck
    UCL Cancer Institute, University College London, London WC1E 6BT, UK
    Trends Genet 24:231-7. 2008
  3. pmc An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs)
    Vardhman K Rakyan
    Institute of Cell and Molecular Science, Barts and The London, London E1 2AT, United Kingdom
    Genome Res 18:1518-29. 2008
  4. pmc Generation of a genomic tiling array of the human Major Histocompatibility Complex (MHC) and its application for DNA methylation analysis
    Eleni M Tomazou
    UCL Cancer Institute, University College London, 72 Huntley Street, London, WC1E 6BT, UK
    BMC Med Genomics 1:19. 2008
  5. pmc Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains
    Vardhman K Rakyan
    Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London E1 2AT, UK
    Genome Res 20:434-9. 2010
  6. pmc Identification of type 1 diabetes-associated DNA methylation variable positions that precede disease diagnosis
    Vardhman K Rakyan
    Blizard Institute of Cell and Molecular Science, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, United Kingdom
    PLoS Genet 7:e1002300. 2011
  7. pmc Epigenome-wide association studies for common human diseases
    Vardhman K Rakyan
    Blizard Institute of Cell and Molecular Science, Barts and the London School of Medicine and Dentistry, Queen Mary, University of London, London, UK
    Nat Rev Genet 12:529-41. 2011
  8. pmc Integrated genetic and epigenetic analysis identifies haplotype-specific methylation in the FTO type 2 diabetes and obesity susceptibility locus
    Christopher G Bell
    Medical Genomics, UCL Cancer Institute, University College London, London, United Kingdom
    PLoS ONE 5:e14040. 2010
  9. pmc Genome wide analysis of acute myeloid leukemia reveal leukemia specific methylome and subtype specific hypomethylation of repeats
    Marwa H Saied
    Centre of Haemato Oncology, Barts Cancer Institute, Barts and the London School of Medicine, Queen Mary University, London, United Kingdom
    PLoS ONE 7:e33213. 2012
  10. pmc Comparative methylomics reveals gene-body H3K36me3 in Drosophila predicts DNA methylation and CpG landscapes in other invertebrates
    Lisa Nanty
    The Blizard Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London E1 2AT, United Kingdom
    Genome Res 21:1841-50. 2011

Collaborators

Detail Information

Publications21

  1. pmc DNA methylation profiling of human chromosomes 6, 20 and 22
    Florian Eckhardt
    Epigenomics AG, Kleine Präsidentstrasse 1, 10178 Berlin, Germany
    Nat Genet 38:1378-85. 2006
    ..Our data suggest DNA methylation to be ontogenetically more stable than previously thought...
  2. doi request reprint The methylome: approaches for global DNA methylation profiling
    Stephan Beck
    UCL Cancer Institute, University College London, London WC1E 6BT, UK
    Trends Genet 24:231-7. 2008
    ....
  3. pmc An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs)
    Vardhman K Rakyan
    Institute of Cell and Molecular Science, Barts and The London, London E1 2AT, United Kingdom
    Genome Res 18:1518-29. 2008
    ....
  4. pmc Generation of a genomic tiling array of the human Major Histocompatibility Complex (MHC) and its application for DNA methylation analysis
    Eleni M Tomazou
    UCL Cancer Institute, University College London, 72 Huntley Street, London, WC1E 6BT, UK
    BMC Med Genomics 1:19. 2008
    ..Its successful application for DNA methylation profiling indicates that this array represents a useful tool for molecular analyses of the MHC in the context of medical genomics...
  5. pmc Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains
    Vardhman K Rakyan
    Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London E1 2AT, UK
    Genome Res 20:434-9. 2010
    ....
  6. pmc Identification of type 1 diabetes-associated DNA methylation variable positions that precede disease diagnosis
    Vardhman K Rakyan
    Blizard Institute of Cell and Molecular Science, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, United Kingdom
    PLoS Genet 7:e1002300. 2011
    ....
  7. pmc Epigenome-wide association studies for common human diseases
    Vardhman K Rakyan
    Blizard Institute of Cell and Molecular Science, Barts and the London School of Medicine and Dentistry, Queen Mary, University of London, London, UK
    Nat Rev Genet 12:529-41. 2011
    ..We also discuss how integration of EWASs with GWASs can help to dissect complex GWAS haplotypes for functional analysis...
  8. pmc Integrated genetic and epigenetic analysis identifies haplotype-specific methylation in the FTO type 2 diabetes and obesity susceptibility locus
    Christopher G Bell
    Medical Genomics, UCL Cancer Institute, University College London, London, United Kingdom
    PLoS ONE 5:e14040. 2010
    ....
  9. pmc Genome wide analysis of acute myeloid leukemia reveal leukemia specific methylome and subtype specific hypomethylation of repeats
    Marwa H Saied
    Centre of Haemato Oncology, Barts Cancer Institute, Barts and the London School of Medicine, Queen Mary University, London, United Kingdom
    PLoS ONE 7:e33213. 2012
    ..MeDIP-seq data were validated using bisulfite pyrosequencing and the Infinium array...
  10. pmc Comparative methylomics reveals gene-body H3K36me3 in Drosophila predicts DNA methylation and CpG landscapes in other invertebrates
    Lisa Nanty
    The Blizard Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London E1 2AT, United Kingdom
    Genome Res 21:1841-50. 2011
    ..We propose that over evolutionary time, gene-body H3K36me3 has influenced gene-body DNA methylation levels and, consequently, the gene-body CpG density bimodality characteristic of invertebrates that harbor CpG methylation...
  11. pmc Genome-wide DNA methylation analysis for diabetic nephropathy in type 1 diabetes mellitus
    Christopher G Bell
    Medical Genomics, UCL Cancer Institute, University College London, London, UK
    BMC Med Genomics 3:33. 2010
    ..Cases had T1D and nephropathy whereas controls had T1D but no evidence of renal disease...
  12. pmc Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors
    Andrew Feber
    Medical Genomics, UCL Cancer Institute, University College London, London, United Kingdom
    Genome Res 21:515-24. 2011
    ..This study establishes MeDIP-seq as an effective method to analyze cancer methylomes...
  13. pmc Marmal-aid--a database for Infinium HumanMethylation450
    Robert Lowe
    The Blizard Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London, UK
    BMC Bioinformatics 14:359. 2013
    ..However, accessing all this data requires downloading each individual experiment and due to inconsistent annotation, accessing the right data can be a challenge...
  14. pmc Guthrie card methylomics identifies temporally stable epialleles that are present at birth in humans
    Huriya Beyan
    The Blizard Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London E1 2AT, United Kingdom
    Genome Res 22:2138-45. 2012
    ..e., before overt clinical disease. Guthrie card methylomics offers a potentially powerful and cost-effective strategy for studying the dynamics of interindividual epigenomic variation in a range of common human diseases...
  15. doi request reprint Transgenerational inheritance of non-genetically determined phenotypes
    Michelle L Holland
    The Blizard Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, 4 Newark Street, London E1 2AT, UK
    Biochem Soc Trans 41:769-76. 2013
    ....
  16. doi request reprint The hunt for the epiallele
    Sarah Finer
    The Blizard Institute, Barts and the London School of Medicine and Dentistry, Queen Mary University of London, London E1 2AT, United Kingdom
    Environ Mol Mutagen 52:1-11. 2011
    ..Finally, we will consider epialleles in population variation and their teleological role in evolution. variation and their teleological role in evolution...
  17. pmc DNA methylation profiling of the human major histocompatibility complex: a pilot study for the human epigenome project
    Vardhman K Rakyan
    The Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom
    PLoS Biol 2:e405. 2004
    ..e., the vast majority of the analysed regions were either hypo- or hypermethylated), tissue specificity, inter-individual variation, and correlation with independent gene expression data...
  18. ncbi request reprint From genome to epigenome
    Adele Murrell
    The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
    Hum Mol Genet 14:R3-R10. 2005
    ..Here, we review the current thinking and progress on how to get from the genome to the epigenome(s) and discuss some potential applications...
  19. pmc A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis
    Thomas A Down
    Wellcome Trust Cancer Research UK Gurdon Institute, and Department of Genetics, University of Cambridge, Tennis Court Road, Cambridge CB2 1QR, UK
    Nat Biotechnol 26:779-85. 2008
    ....
  20. ncbi request reprint Epigenetic variation and inheritance in mammals
    Vardhman K Rakyan
    Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK
    Curr Opin Genet Dev 16:573-7. 2006
    ..Recent work from mouse models, human monozygotic twin studies, and large-scale epigenetic profiling suggests that epigenetically determined phenotypes and epigenetic inheritance are more common than previously appreciated...
  21. pmc Transgenerational inheritance of epigenetic states at the murine Axin(Fu) allele occurs after maternal and paternal transmission
    Vardhman K Rakyan
    School of Molecular and Microbial Biosciences, University of Sydney, New South Wales 2006, Australia
    Proc Natl Acad Sci U S A 100:2538-43. 2003
    ..Finally, we show that epigenetic inheritance is influenced by strain background. These findings enable us to propose a model for transgenerational epigenetic inheritance in mammals...