David J Balding

Summary

Affiliation: Imperial College
Country: UK

Publications

  1. ncbi request reprint A tutorial on statistical methods for population association studies
    David J Balding
    Department of Epidemiology and Public Health, Imperial College, St Marys Campus, Norfolk Place, London W2 1PG, UK
    Nat Rev Genet 7:781-91. 2006
  2. ncbi request reprint Interpreting low template DNA profiles
    David J Balding
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W21PG, UK
    Forensic Sci Int Genet 4:1-10. 2009
  3. ncbi request reprint Likelihood-based inference for genetic correlation coefficients
    David J Balding
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W2 1PG, UK
    Theor Popul Biol 63:221-30. 2003
  4. pmc Simultaneous analysis of all SNPs in genome-wide and re-sequencing association studies
    Clive J Hoggart
    Department of Epidemiology and Public Health, Imperial College, London, United Kingdom
    PLoS Genet 4:e1000130. 2008
  5. ncbi request reprint Genome-wide significance for dense SNP and resequencing data
    Clive J Hoggart
    Department of Epidemiology and Public Health, Imperial College London, Norfolk Place, London, UK
    Genet Epidemiol 32:179-85. 2008
  6. pmc Fregene: simulation of realistic sequence-level data in populations and ascertained samples
    Marc Chadeau-Hyam
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London, W2 1PG, UK
    BMC Bioinformatics 9:364. 2008
  7. pmc Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions
    Shu Yi Su
    Department of Epidemiology and Public Health, Imperial College, London, W2 1PG, UK
    BMC Bioinformatics 9:513. 2008
  8. pmc A genome-wide association study of the metabolic syndrome in Indian Asian men
    Delilah Zabaneh
    Department of Epidemiology and Public Health, Imperial College London, London, UK
    PLoS ONE 5:e11961. 2010
  9. pmc Inferring combined CNV/SNP haplotypes from genotype data
    Shu Yi Su
    Department of Epidemiology and Biostatistics, School of Public Health, Imperial College, London W2 1PG, UK
    Bioinformatics 26:1437-45. 2010
  10. pmc Inferring population history with DIY ABC: a user-friendly approach to approximate Bayesian computation
    Jean Marie Cornuet
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W2 1PG, UK
    Bioinformatics 24:2713-9. 2008

Detail Information

Publications36

  1. ncbi request reprint A tutorial on statistical methods for population association studies
    David J Balding
    Department of Epidemiology and Public Health, Imperial College, St Marys Campus, Norfolk Place, London W2 1PG, UK
    Nat Rev Genet 7:781-91. 2006
    ..My goal is to outline the key methods with a brief discussion of problems (population structure and multiple testing), avenues for solutions and some ongoing developments...
  2. ncbi request reprint Interpreting low template DNA profiles
    David J Balding
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W21PG, UK
    Forensic Sci Int Genet 4:1-10. 2009
    ..We illustrate that ignoring the possibility of drop-in is usually unfair to defendants, and argue that under circumstances in which the prosecution relies on drop-out, it may be unsatisfactory to ignore any possibility of drop-in...
  3. ncbi request reprint Likelihood-based inference for genetic correlation coefficients
    David J Balding
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W2 1PG, UK
    Theor Popul Biol 63:221-30. 2003
    ..This framework can be used, for example, to detect environment-related diversifying selection...
  4. pmc Simultaneous analysis of all SNPs in genome-wide and re-sequencing association studies
    Clive J Hoggart
    Department of Epidemiology and Public Health, Imperial College, London, United Kingdom
    PLoS Genet 4:e1000130. 2008
    ....
  5. ncbi request reprint Genome-wide significance for dense SNP and resequencing data
    Clive J Hoggart
    Department of Epidemiology and Public Health, Imperial College London, Norfolk Place, London, UK
    Genet Epidemiol 32:179-85. 2008
    ..We compare our results for sequence data to those derived by the HapMap Consortium and find notable differences which may be due to the small sample sizes used in the HapMap estimate...
  6. pmc Fregene: simulation of realistic sequence-level data in populations and ascertained samples
    Marc Chadeau-Hyam
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London, W2 1PG, UK
    BMC Bioinformatics 9:364. 2008
    ..We describe here main functionalities of both FREGENE and SAMPLE, a companion program that can replicate association study datasets...
  7. pmc Inference of haplotypic phase and missing genotypes in polyploid organisms and variable copy number genomic regions
    Shu Yi Su
    Department of Epidemiology and Public Health, Imperial College, London, W2 1PG, UK
    BMC Bioinformatics 9:513. 2008
    ..It employs a hidden Markov model (HMM) and a sampling algorithm to infer haplotypes jointly in multiple individuals and to obtain a measure of uncertainty in its inferences...
  8. pmc A genome-wide association study of the metabolic syndrome in Indian Asian men
    Delilah Zabaneh
    Department of Epidemiology and Public Health, Imperial College London, London, UK
    PLoS ONE 5:e11961. 2010
    ..Further, we found little evidence of a common genetic basis for metabolic syndrome traits in our sample of Indian Asian men...
  9. pmc Inferring combined CNV/SNP haplotypes from genotype data
    Shu Yi Su
    Department of Epidemiology and Biostatistics, School of Public Health, Imperial College, London W2 1PG, UK
    Bioinformatics 26:1437-45. 2010
    ..Thus, haplotypic phase of CNVs and SNPs are inferred simultaneously. A sampling algorithm is employed to obtain a measure of confidence/credibility of each estimate...
  10. pmc Inferring population history with DIY ABC: a user-friendly approach to approximate Bayesian computation
    Jean Marie Cornuet
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W2 1PG, UK
    Bioinformatics 24:2713-9. 2008
    ..This article describes key methods used in the program and provides its main features. The analysis of one simulated and one real dataset, both with complex evolutionary scenarios, illustrates the main possibilities of DIY ABC...
  11. pmc Sequence-level population simulations over large genomic regions
    Clive J Hoggart
    Department of Epidemiology and Public Health, Imperial College, London W2 1PG, United Kingdom
    Genetics 177:1725-31. 2007
    ....
  12. pmc Confounding between recombination and selection, and the Ped/Pop method for detecting selection
    Paul F O'Reilly
    Department of Epidemiology and Public Health, Imperial College London, UK
    Genome Res 18:1304-13. 2008
    ..We apply the method to human HapMap and Perlegen data sets, finding confirmation of reported candidates as well as identifying new loci that may have undergone recent intense selection...
  13. doi request reprint cnvHap: an integrative population and haplotype-based multiplatform model of SNPs and CNVs
    Lachlan J M Coin
    Department of Epidemiology and Biostatistics, School of Public Health, Imperial College London, St Mary s Hospital, London, UK
    Nat Methods 7:541-6. 2010
    ..Combining data from multiple platforms additionally improved sensitivity...
  14. pmc A genome-wide association study of neuroticism in a population-based sample
    Federico C F Calboli
    Department of Epidemiology and Biostatistics, Imperial College London, London, United Kingdom
    PLoS ONE 5:e11504. 2010
    ..Our study was powered to detect almost all SNPs explaining at least 2% of heritability, and so our results effectively exclude the existence of loci having a major effect on neuroticism...
  15. pmc Functional constraint and small insertions and deletions in the ENCODE regions of the human genome
    Taane G Clark
    Department of Epidemiology and Public Health, Imperial College, Norfolk Place, London, W2 1PG, UK
    Genome Biol 8:R180. 2007
    ..We relate indels to known genomic annotation features and measures of evolutionary constraint...
  16. doi request reprint Using penalised logistic regression to fine map HLA variants for rheumatoid arthritis
    Charlotte M Vignal
    Department of Epidemiology and Public Health, Imperial College London, UK
    Ann Hum Genet 75:655-64. 2011
    ..We conclude that SNP selection using penalised regression shows a substantial benefit over single-SNP analyses in identifying risk loci in regions of high LD, and the flexibility of the NEG conveys additional advantages...
  17. pmc Population structure and inbreeding from pedigree analysis of purebred dogs
    Federico C F Calboli
    Department of Epidemiology and Public Health, Imperial College, London W2 1PG, United Kingdom
    Genetics 179:593-601. 2008
    ..As well as informing the design of canine population genetics studies, our results have implications for breeding practices to enhance canine welfare...
  18. doi request reprint Disease association tests by inferring ancestral haplotypes using a hidden markov model
    Shu Yi Su
    Department of Epidemiology and Public Health, Imperial College, London W2 1PG, UK
    Bioinformatics 24:972-8. 2008
    ..Haplotype-based methods provide a promising approach; however, they suffer from statistical problems such as abundance of rare haplotypes and ambiguity in defining haplotype block boundaries...
  19. ncbi request reprint Exon sequencing and high resolution haplotype analysis of ABC transporter genes implicated in drug resistance
    Guy Leschziner
    Imperial College, London, UK
    Pharmacogenet Genomics 16:439-50. 2006
    ....
  20. ncbi request reprint Clustering of protein domains in the human genome
    Lianne R Mayor
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, London W2 1PG, UK
    J Mol Biol 340:991-1004. 2004
    ..Thus, our study suggests that either the process of gene duplication, or the evolution of the resulting clusters, differs between structural superfamilies...
  21. pmc Interaction between gas cooking and GSTM1 null genotype in bronchial responsiveness: results from the European Community Respiratory Health Survey
    André F S Amaral
    Respiratory Epidemiology, Occupational Medicine and Public Health, National Heart and Lung Institute, Imperial College, London, UK MRC PHE Centre for Environment and Health, London, UK
    Thorax 69:558-64. 2014
    ..However, little is known about the effect of gas cooking on bronchial responsiveness and on how this relationship may be modified by variants in the genes GSTM1, GSTT1 and GSTP1, which influence antioxidant defences...
  22. ncbi request reprint Discrimination of half-siblings when maternal genotypes are known
    Lianne R Mayor
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, Norfolk Place, London W2 1PG, UK
    Forensic Sci Int 159:141-7. 2006
    ..We illustrate that using an appropriate value of theta can reduce the average misclassification rate...
  23. doi request reprint Admixture provides new insights into recombination
    Paul F O'Reilly
    Department of Epidemiology and Biostatistics, Imperial College, London, UK
    Nat Genet 43:819-20. 2011
    ..The publication of the first admixture-derived human genetic maps offers a new approach for inferring recombination events and provides insight into variation in recombination rate patterns across populations...
  24. pmc Logistic regression protects against population structure in genetic association studies
    Efrosini Setakis
    Department of Epidemiology and Public Health, Imperial College, St Mary s Campus, London W2 1PG, United Kingdom
    Genome Res 16:290-6. 2006
    ....
  25. ncbi request reprint Implications for DNA identification arising from an analysis of Australian forensic databases
    Karen L Ayres
    School of Applied Statistics, The University of Reading, P O Box 240, Earley Gate, UK
    Forensic Sci Int 129:90-8. 2002
    ....
  26. pmc Approximate Bayesian computation in population genetics
    Mark A Beaumont
    School of Animal and Microbial Sciences, The University of Reading, Whiteknights, Reading RG6 6AJ, United Kingdom
    Genetics 162:2025-35. 2002
    ..We also compare the relative efficiency of inferences obtained using methods based on summary statistics with those obtained directly from the data using MCMC...
  27. pmc Multipoint linkage-disequilibrium mapping narrows location interval and identifies mutation heterogeneity
    Andrew P Morris
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, United Kingdom
    Proc Natl Acad Sci U S A 100:13442-6. 2003
    ..We further investigate a selection of SNP subsets and find that previously reported methods lead to a 38% savings in SNPs at the cost of an increase of <20% in the width of the location interval...
  28. ncbi request reprint Identifying adaptive genetic divergence among populations from genome scans
    Mark A Beaumont
    School of Animal and Microbial Sciences, The University of Reading, Whiteknights, PO Box 228, Reading RG6 6AJ, UK
    Mol Ecol 13:969-80. 2004
    ..Neither method could reliably distinguish loci under balancing selection in our simulations, even when the selection coefficient is twenty times the migration rate...
  29. ncbi request reprint The DNA database search controversy
    David J Balding
    Department of Applied Statistics, University of Reading, UK
    Biometrics 58:241-4. 2002
    ..I outline reasons why Stockmarr and the NRC report are wrong. I also briefly discuss possible reasons why forensic applications tend to be problematic for statisticians...
  30. ncbi request reprint Family-based association analysis with ordered categorical phenotypes, covariates and interactions
    M Fazil Baksh
    Section of Applied Statistics, The University of Reading, Reading, UK
    Genet Epidemiol 31:1-8. 2007
    ..By including sex interactions in the analysis, we show that the polymorphism is associated with anti-nuclear autoantibody (ANA) production in females, while there appears to be no effect in males...
  31. ncbi request reprint Variation in estimated recombination rates across human populations
    Jan Graffelman
    Department of Statistics and Operations Research, Universitat Politecnica de Catalunya, Avinguda Diagonal 647, 08028 Barcelona, Spain
    Hum Genet 122:301-10. 2007
    ..Several results from studies on the population history of humans are in accordance with our analysis. Our results suggest that between-population variation in DNA sequences may underly recombination rate variation...
  32. ncbi request reprint Paternity index calculations when some individuals share common ancestry
    Karen L Ayres
    Forensic Sci Int 151:101-3. 2005
  33. ncbi request reprint Clinical factors and ABCB1 polymorphisms in prediction of antiepileptic drug response: a prospective cohort study
    Guy Leschziner
    Division of Neurosciences, Imperial College London, London, UK
    Lancet Neurol 5:668-76. 2006
    ..We aimed to determine the effect of the ABCB1 gene on epilepsy drug response, using a unique large cohort of epilepsy patients with prospectively measured seizure and drug response outcomes...
  34. ncbi request reprint A genome-wide association study identifies novel risk loci for type 2 diabetes
    Robert Sladek
    Department of Human Genetics, McGill University and Genome Quebec Innovation Centre, Montreal H3A 1A4, Canada
    Nature 445:881-5. 2007
    ..These associations explain a substantial portion of disease risk and constitute proof of principle for the genome-wide approach to the elucidation of complex genetic traits...
  35. ncbi request reprint Common ABCB1 polymorphisms are not associated with multidrug resistance in epilepsy using a gene-wide tagging approach
    Guy D Leschziner
    Imperial College London, London, UK
    Pharmacogenet Genomics 17:217-20. 2007
    ..In addition, no evidence for a role of other common ABCB1 polymorphisms was found using a potentially more powerful gene-wide tagging approach...
  36. ncbi request reprint The association between polymorphisms in RLIP76 and drug response in epilepsy
    Guy D Leschziner
    Imperial College London, Division of Neuroscience, Charing Cross Campus, Room 10E07, St Dunstan s Road, London W6 8RF, UK
    Pharmacogenomics 8:1715-22. 2007
    ..We aimed to look for an association with outcomes reflecting drug response in a larger prospective cohort, with gene-wide coverage...