Dominic P Kwiatkowski

Summary

Affiliation: University of Oxford
Country: UK

Publications

  1. pmc Using CF11 cellulose columns to inexpensively and effectively remove human DNA from Plasmodium falciparum-infected whole blood samples
    Meera Venkatesan
    Howard Hughes Medical Institute, University of Maryland School of Medicine, Baltimore, MD, USA
    Malar J 11:41. 2012
  2. pmc Host candidate gene polymorphisms and clearance of drug-resistant Plasmodium falciparum parasites
    Mahamadou Diakite
    Malaria Research and Training Centre, Faculty of Medicine, Pharmacy and Odontostomatology, University of Bamako, Mali
    Malar J 10:250. 2011
  3. pmc Innate immunity in ocular Chlamydia trachomatis infection: contribution of IL8 and CSF2 gene variants to risk of trachomatous scarring in Gambians
    Angels Natividad
    London School of Hygiene and Tropical Medicine, London University, London, UK
    BMC Med Genet 10:138. 2009
  4. pmc Large-scale association analysis of TNF/LTA gene region polymorphisms in type 2 diabetes
    Vesna Boraska
    Department of Medical Biology, University of Split School of Medicine, Split, Croatia
    BMC Med Genet 11:69. 2010
  5. pmc Classical sickle beta-globin haplotypes exhibit a high degree of long-range haplotype similarity in African and Afro-Caribbean populations
    Neil Hanchard
    Tropical Metabolism Research Unit, Tropical Medicine Research Institute, University of the West Indies, Kingston, Jamaica
    BMC Genet 8:52. 2007
  6. pmc How malaria has affected the human genome and what human genetics can teach us about malaria
    Dominic P Kwiatkowski
    Wellcome Trust Centre for Human Genetics and University Department of Paediatrics, Oxford, United Kingdom
    Am J Hum Genet 77:171-92. 2005
  7. ncbi request reprint The complexity of genetic variation in a simple immune system
    Dominic P Kwiatkowski
    Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, UK OX3 7BN
    Trends Genet 21:197-9. 2005
  8. pmc TLR9 polymorphisms in African populations: no association with severe malaria, but evidence of cis-variants acting on gene expression
    Susana Campino
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    Malar J 8:44. 2009
  9. pmc Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations
    Taane G Clark
    Wellcome Trust Centre for Human Genetics, University of Oxford, Nuffield Department of Medicine, John Radcliffe Hospital, Oxford, United Kingdom
    J Infect Dis 199:569-75. 2009
  10. pmc Lack of association of interferon regulatory factor 1 with severe malaria in affected child-parental trio studies across three African populations
    Valentina D Mangano
    Childhood Infection Group, The Wellcome Trust Centre for Human Genetics, Oxford, United Kingdom
    PLoS ONE 4:e4206. 2009

Detail Information

Publications56

  1. pmc Using CF11 cellulose columns to inexpensively and effectively remove human DNA from Plasmodium falciparum-infected whole blood samples
    Meera Venkatesan
    Howard Hughes Medical Institute, University of Maryland School of Medicine, Baltimore, MD, USA
    Malar J 11:41. 2012
    ..This study was undertaken to determine whether CF11 columns could be adapted to isolate Plasmodium falciparum DNA from parasitized whole blood and achieve current quantity and purity requirements for Illumina sequencing...
  2. pmc Host candidate gene polymorphisms and clearance of drug-resistant Plasmodium falciparum parasites
    Mahamadou Diakite
    Malaria Research and Training Centre, Faculty of Medicine, Pharmacy and Odontostomatology, University of Bamako, Mali
    Malar J 10:250. 2011
    ..This study aimed to identify molecular markers in the human genome that correlate with the clearance of malaria parasites after drug treatment, despite the drug resistance profile of the protozoan as predicted by molecular approaches...
  3. pmc Innate immunity in ocular Chlamydia trachomatis infection: contribution of IL8 and CSF2 gene variants to risk of trachomatous scarring in Gambians
    Angels Natividad
    London School of Hygiene and Tropical Medicine, London University, London, UK
    BMC Med Genet 10:138. 2009
    ....
  4. pmc Large-scale association analysis of TNF/LTA gene region polymorphisms in type 2 diabetes
    Vesna Boraska
    Department of Medical Biology, University of Split School of Medicine, Split, Croatia
    BMC Med Genet 11:69. 2010
    ..The purpose of this study is to examine T2D association of tag SNPs in the TNF/LTA region capturing the majority of common variation in a large-scale sample set of UK/Irish origin...
  5. pmc Classical sickle beta-globin haplotypes exhibit a high degree of long-range haplotype similarity in African and Afro-Caribbean populations
    Neil Hanchard
    Tropical Metabolism Research Unit, Tropical Medicine Research Institute, University of the West Indies, Kingston, Jamaica
    BMC Genet 8:52. 2007
    ..Here we evaluate the haplotype similarity of classical betas haplotypes over 400 kb in population samples from Jamaica, The Gambia, and among the Yoruba of Nigeria (Hapmap YRI)...
  6. pmc How malaria has affected the human genome and what human genetics can teach us about malaria
    Dominic P Kwiatkowski
    Wellcome Trust Centre for Human Genetics and University Department of Paediatrics, Oxford, United Kingdom
    Am J Hum Genet 77:171-92. 2005
    ....
  7. ncbi request reprint The complexity of genetic variation in a simple immune system
    Dominic P Kwiatkowski
    Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, UK OX3 7BN
    Trends Genet 21:197-9. 2005
    ..However, the effects of individual polymorphisms on the resistance phenotype were modest, and epistatic interactions appeared to be common. What might these findings tell us about genetic resistance to infection in humans?..
  8. pmc TLR9 polymorphisms in African populations: no association with severe malaria, but evidence of cis-variants acting on gene expression
    Susana Campino
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    Malar J 8:44. 2009
    ..Although TLR9 activation by malaria parasites is well reported, the implication to the susceptibility to severe malaria is not clear. The aim of this study was to assess the contribution of genetic variation at TLR9 to severe malaria...
  9. pmc Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations
    Taane G Clark
    Wellcome Trust Centre for Human Genetics, University of Oxford, Nuffield Department of Medicine, John Radcliffe Hospital, Oxford, United Kingdom
    J Infect Dis 199:569-75. 2009
    ..Therefore, more-detailed mapping of variants across TNF/LTA genes and their flanking regions in the Gambian and allied populations may need to be undertaken to find any causal polymorphisms...
  10. pmc Lack of association of interferon regulatory factor 1 with severe malaria in affected child-parental trio studies across three African populations
    Valentina D Mangano
    Childhood Infection Group, The Wellcome Trust Centre for Human Genetics, Oxford, United Kingdom
    PLoS ONE 4:e4206. 2009
    ..Our results offer no evidence that the molecular pathways regulated by the transcription factor IRF-1 are involved in the immune-based pathogenesis of severe malaria...
  11. pmc Assessing genuine parents-offspring trios for genetic association studies
    Yik Y Teo
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    Hum Hered 67:26-37. 2009
    ..Here, we introduce a method for evaluating the authenticity of nuclear family trios...
  12. pmc Association of the GNAS locus with severe malaria
    Sarah Auburn
    Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, OX3 7BN, UK
    Hum Genet 124:499-506. 2008
    ..88 (0.81-0.96), P = 0.005 and OR = 1.12 (1.03-1.20), P = 0.005]. The evidence presented here indicates that the influence of G-alpha-s on erythrocyte invasion efficacy may, indeed, alter individual susceptibility to disease...
  13. pmc Further evidence supporting a role for gs signal transduction in severe malaria pathogenesis
    Sarah Auburn
    Wellcome Trust Centre for Human Genetics, Oxford, United Kingdom
    PLoS ONE 5:e10017. 2010
    ..Our results provide further evidence supporting a role of the Gs signal transduction pathway in the regulation of severe malaria, and request further exploration of this pathway in future studies...
  14. pmc Genome-wide comparisons of variation in linkage disequilibrium
    Yik Y Teo
    Wellcome Trust Centre for Human Genetics, University of Oxford, United Kingdom
    Genome Res 19:1849-60. 2009
    ....
  15. pmc Positive selection of a CD36 nonsense variant in sub-Saharan Africa, but no association with severe malaria phenotypes
    Andrew E Fry
    Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK
    Hum Mol Genet 18:2683-92. 2009
    ..98). These results suggest a range of possible explanations including the existence of alternative selection pressures on CD36, co-evolution between host and parasite or confounding caused by allelic heterogeneity of CD36 deficiency...
  16. pmc Validating discovered Cis-acting regulatory genetic variants: application of an allele specific expression approach to HapMap populations
    Susana Campino
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    PLoS ONE 3:e4105. 2008
    ..A complementary approach is to use an Allele-Specific Expression (ASE) assay, which is more robust to the effects of environmental variation and trans-acting genetic factors...
  17. pmc Power consequences of linkage disequilibrium variation between populations
    Yik Y Teo
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    Genet Epidemiol 33:128-35. 2009
    ....
  18. pmc Methodological challenges of genome-wide association analysis in Africa
    Yik Ying Teo
    Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK
    Nat Rev Genet 11:149-60. 2010
    ..We review the methodological challenges and consider how GWA studies in Africa will be transformed by new approaches in statistical imputation and large-scale genome sequencing...
  19. pmc Imputation-based meta-analysis of severe malaria in three African populations
    Gavin Band
    Wellcome Trust Centre for Human Genetics, Oxford, United Kingdom
    PLoS Genet 9:e1003509. 2013
    ....
  20. pmc Screening for recently selected alleles by analysis of human haplotype similarity
    Neil A Hanchard
    Wellcome Trust Centre for Human Genetics, Oxford, United Kingdom
    Am J Hum Genet 78:153-9. 2006
    ..Using this method, we also evaluated >4,000 SNPs on chromosome 20, indicating the applicability of the method to regional data sets...
  21. ncbi request reprint Association of Fcgamma receptor IIa (CD32) polymorphism with severe malaria in West Africa
    Graham S Cooke
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom
    Am J Trop Med Hyg 69:565-8. 2003
    ..This is the first evidence for an association between CD32 polymorphism and severe malaria and provides an example of balancing selective pressures from different infectious diseases operating at the same genetic locus...
  22. pmc Drug-resistant genotypes and multi-clonality in Plasmodium falciparum analysed by direct genome sequencing from peripheral blood of malaria patients
    Timothy Robinson
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom
    PLoS ONE 6:e23204. 2011
    ..falciparum taken directly from malaria patients provides high quality data useful for drug resistance studies, genomic structural analyses and population genetics, and also robustly represents clonal multiplicity...
  23. pmc Haplotype homozygosity and derived alleles in the human genome
    Andrew E Fry
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, OX3 7BN, United Kingdom
    Am J Hum Genet 78:1053-9. 2006
    ..Our results support the use of haplotype-based techniques, such as extended haplotypic homozygosity, to assess the age of alleles...
  24. pmc Tumor necrosis factor SNP haplotypes are associated with iron deficiency anemia in West African children
    Sarah H Atkinson
    Medical Research Council MRC Keneba and MRC Laboratories, Banjul, The Gambia
    Blood 112:4276-83. 2008
    ..Thus, TNF appears to be a risk factor for iron deficiency and IDA in children in a malaria-endemic environment and this is likely to be due to a TNF-alpha-induced block in iron absorption...
  25. ncbi request reprint In vivo characterization of regulatory polymorphisms by allele-specific quantification of RNA polymerase loading
    Julian C Knight
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK
    Nat Genet 33:469-75. 2003
    ..The haploChIP method may be useful in high-throughput screening for common DNA polymorphisms that affect gene regulation in vivo...
  26. pmc Common variation in the ABO glycosyltransferase is associated with susceptibility to severe Plasmodium falciparum malaria
    Andrew E Fry
    The Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK
    Hum Mol Genet 17:567-76. 2008
    ..5-99.9th centile). This low F(ST) region may be a signal of long-standing balancing selection at the ABO locus, caused by multiple infectious pathogens including P. falciparum...
  27. pmc Allelic heterogeneity of G6PD deficiency in West Africa and severe malaria susceptibility
    Taane G Clark
    Wellcome Trust Centre for Human Genetics, University of Oxford, UK
    Eur J Hum Genet 17:1080-5. 2009
    ..Our results highlight some of the consequences of allelic heterogeneity, particularly the increased type I error. They also suggest that G6PD-deficient male hemizygotes and female heterozygotes are protected from severe malaria...
  28. ncbi request reprint Allele-specific repression of lymphotoxin-alpha by activated B cell factor-1
    Julian C Knight
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK
    Nat Genet 36:394-9. 2004
    ..These findings provide a molecular model of how LTA expression may be genetically regulated by allele-specific recruitment of the transcriptional repressor ABF-1...
  29. ncbi request reprint Haplotype mapping of the bronchiolitis susceptibility locus near IL8
    Jeremy Hull
    University Department of Paediatrics, Level 4, John Radcliffe Hospital, Headington, Oxford, OX3 9DU, UK
    Hum Genet 114:272-9. 2004
    ..In between these two genes there is only one structural feature of interest, a novel gene RASSF6, which is predicted to encode a Ras effector protein...
  30. pmc Localization of a long-range cis-regulatory element of IL13 by allelic transcript ratio mapping
    Julian T Forton
    Department of Paediatrics, Oxford University, Oxford OX3 7BN, United Kingdom
    Genome Res 17:82-7. 2007
    ..As this method is unaffected by other sources of variation, such as environmental and trans-acting genetic factors, it provides a tractable approach for dissecting the complexities of genetic variation in gene regulation...
  31. pmc A genotype calling algorithm for the Illumina BeadArray platform
    Yik Y Teo
    Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK
    Bioinformatics 23:2741-6. 2007
    ..As the technology moves towards assaying millions of genetic polymorphisms simultaneously, there is a need for an integrated and easy-to-use software for calling genotypes...
  32. pmc Valid consent for genomic epidemiology in developing countries
    Dave A Chokshi
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United Kingdom
    PLoS Med 4:e95. 2007
  33. pmc Enhancing blockade of Plasmodium falciparum erythrocyte invasion: assessing combinations of antibodies against PfRH5 and other merozoite antigens
    Andrew R Williams
    The Jenner Institute, University of Oxford, Oxford, United Kingdom
    PLoS Pathog 8:e1002991. 2012
    ..falciparum antigens and should help to guide the rational development of future multi-antigen vaccines...
  34. pmc Data sharing and intellectual property in a genomic epidemiology network: policies for large-scale research collaboration
    Dave A Chokshi
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, England
    Bull World Health Organ 84:382-7. 2006
    ..We outline some pragmatic solutions founded on the basic principles of promoting innovation and access...
  35. ncbi request reprint Genomewide analysis of the host response to malaria in Kenyan children
    Michael J Griffiths
    Wellcome Trust Centre for Human Genetics, Oxford University, Oxford, UK
    J Infect Dis 191:1599-611. 2005
    ..The delineation of subjects on the basis of patterns of gene expression provides a molecular perspective of the host response to malaria and further functional insight into the underlying processes of pathogenesis...
  36. ncbi request reprint Nucleotide and haplotypic diversity of the NOS2A promoter region and its relationship to cerebral malaria
    David Burgner
    Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford, OX2 7BN, UK
    Hum Genet 112:379-86. 2003
    ..Despite high linkage disequilibrium across the region studied, this association would not have been detected without the initial construction of a dense marker set for haplotype tagging...
  37. pmc Common variants near MC4R are associated with fat mass, weight and risk of obesity
    Ruth J F Loos
    MRC Epidemiology Unit, Addenbrooke s Hospital, Cambridge CB2 0QQ, UK
    Nat Genet 40:768-75. 2008
    ....
  38. pmc Quantitative high-throughput analysis of transcription factor binding specificities
    Jane Linnell
    Wellcome Trust Centre for Human Genetics, University of Oxford, 7 Roosevelt Drive, Oxford OX3 7BN, UK
    Nucleic Acids Res 32:e44. 2004
    ..This approach offers the potential for high-throughput determination of TF binding profiles and predicting the effects of single nucleotide polymorphisms on TF binding affinity. New DNA binding data for OCT-1 are presented...
  39. pmc Seasonal childhood anaemia in West Africa is associated with the haptoglobin 2-2 genotype
    Sarah H Atkinson
    Medical Research Council Laboratories, Banjul, The Gambia
    PLoS Med 3:e172. 2006
    ..Previous studies examined the importance of haptoglobin polymorphism in malaria and iron homeostasis, but it is unknown whether haptoglobin genotype might be a risk factor for anaemia in children in a malaria-endemic area...
  40. pmc A coding polymorphism in matrix metalloproteinase 9 reduces risk of scarring sequelae of ocular Chlamydia trachomatis infection
    Angels Natividad
    London School of Hygiene and Tropical Medicine, London University, London, UK
    BMC Med Genet 7:40. 2006
    ..Genetic variation within the MMP9 gene affects in vitro MMP9 expression levels, enzymatic activity and susceptibility to various inflammatory and fibrotic conditions...
  41. ncbi request reprint Searching for the regulators of human gene expression
    Julian T Forton
    Department of Paediatrics, University of Oxford, UK
    Bioessays 28:968-72. 2006
    ..This work gives new insights into the complexities of gene regulation and the plausibility of genome-wide study design...
  42. pmc A Mal functional variant is associated with protection against invasive pneumococcal disease, bacteremia, malaria and tuberculosis
    Chiea C Khor
    The Wellcome Trust Centre for Human Genetics, University of Oxford, UK
    Nat Genet 39:523-8. 2007
    ..6 x 10(-8)). We found that the Mal S180L variant attenuated TLR2 signal transduction...
  43. pmc Replication of genome-wide association signals in UK samples reveals risk loci for type 2 diabetes
    Eleftheria Zeggini
    Oxford Centre for Diabetes, Endocrinology and Metabolism, University of Oxford, Churchill Hospital, Oxford, OX3 7LJ, UK
    Science 316:1336-41. 2007
    ..The regions identified underscore the importance of pathways influencing pancreatic beta cell development and function in the etiology of type 2 diabetes...
  44. ncbi request reprint Host genetic factors in resistance and susceptibility to malaria
    Dominic P Kwiatkowski
    Parassitologia 48:450-67. 2006
  45. pmc Haplotypic analysis of the TNF locus by association efficiency and entropy
    Hans Ackerman
    Wellcome Trust for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK
    Genome Biol 4:R24. 2003
    ..3 kilobases in 296 healthy, unrelated Gambian and Malawian adults. We generated 592 high-quality haplotypes by integrating family- and population-based reconstruction methods...
  46. pmc Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease
    Sheila A Fisher
    Department of Medical and Molecular Genetics, King s College London School of Medicine, 8th Floor Guy s Tower, Guy s Hospital, London SE1 9RT, UK
    Nat Genet 40:710-2. 2008
    ..These data provide the first detailed illustration of the genetic relationship between these common inflammatory bowel diseases...
  47. pmc Whole genome-amplified DNA: insights and imputation
    Yik Y Teo
    Nat Methods 5:279-80. 2008
  48. doi request reprint Severe anemia in Malawian children
    Job C J Calis
    Malawi Liverpool Wellcome Trust Clinical Research Programme, College of Medicine, Blantyre, Malawi
    N Engl J Med 358:888-99. 2008
    ..Severe anemia is a major cause of sickness and death in African children, yet the causes of anemia in this population have been inadequately studied...
  49. doi request reprint Haptoglobin genotype, anaemia and malaria in Gambian children
    Sharon E Cox
    MRC International Nutrition Group, London School of Hygiene and Tropical Medicine, UK
    Trop Med Int Health 13:76-82. 2008
    ..To retest our previous finding that the haptoglobin (Hp) 22 genotype is associated with seasonal anaemia, and to investigate the role of malaria in this effect...
  50. pmc Association scan of 14,500 nonsynonymous SNPs in four diseases identifies autoimmunity variants
    Paul R Burton
    Genetic Epidemiology Group, Department of Health Sciences, University of Leicester, Adrian Building, University Road, Leicester LE1 7RH, UK
    Nat Genet 39:1329-37. 2007
    ....
  51. pmc Response of the splenic dendritic cell population to malaria infection
    Andrew L Leisewitz
    Weatherall Institute of of Molecular Medicine, and University Department of Paediatrics, John Radcliffe Hospital, University of Oxford, Oxford, UK
    Infect Immun 72:4233-9. 2004
    ..These findings show that splenic dendritic cells are actively engaged in the earliest phase of malarial infection in vivo and are likely to be critical in shaping the subsequent immune response...
  52. ncbi request reprint New interventions for malaria: mining the human and parasite genomes
    Francine Ntoumi
    Research Unit, Hopital Albert Schweitzer, Lambarene, Gabon
    Am J Trop Med Hyg 77:270-5. 2007
    ..However, genomics studies of human populations raise important ethical issues, such as the disposition of data related to disease susceptibility or paternity, and the ability of communities to understand the nature of the research...
  53. ncbi request reprint Context-specific functional effects of IFNGR1 promoter polymorphism
    Oliver Koch
    Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK
    Hum Mol Genet 15:1475-81. 2006
    ..These findings suggest a mechanism by which a single genetic variant may cause a broad range of phenotypic consequences...
  54. ncbi request reprint Investigation of familial segregation of hyperreactive malarial splenomegaly in Kumasi, Ghana
    Ruby Martin-Peprah
    Department of Medicine, Komfo Anokye Teaching Hospital, P O Box 1934, Kumasi, Ghana
    Trans R Soc Trop Med Hyg 100:68-73. 2006
    ..HMS aetiology in Ghana is likely to be complex, involving multiple genetic and environmental factors...
  55. ncbi request reprint Improved allelic differentiation using sequence-specific oligonucleotide hybridization incorporating an additional base-analogue mismatch
    David Burgner
    Department of Paediatrics, University of Oxford, Oxford, UK
    Nucleosides Nucleotides Nucleic Acids 23:755-65. 2004
    ..This improved method increases the usefulness of hybridisation-based methods of rapid genotyping of SNPs and may have implications for array methodologies...
  56. ncbi request reprint Susceptibility to sequelae of human ocular chlamydial infection associated with allelic variation in IL10 cis-regulation
    Angels Natividad
    Infectious and Tropical Diseases Department, London School of Hygiene and Tropical Medicine, London WC1E 7HT, UK
    Hum Mol Genet 17:323-9. 2008
    ..0001). These findings provide a plausible functional explanation for the observed genetic association, and support the hypothesis that an excessive IL10 response to C. trachomatis infection is a risk factor for scarring and blindness...