Kristin K Nicodemus

Summary

Affiliation: University of Oxford
Country: UK

Publications

  1. pmc Catmap: case-control and TDT meta-analysis package
    Kristin K Nicodemus
    Genes, Cognition and Psychosis Program, Clinical Brain Disorders Branch, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, USA
    BMC Bioinformatics 9:130. 2008
  2. ncbi Data mining, neural nets, trees--problems 2 and 3 of Genetic Analysis Workshop 15
    Andreas Ziegler
    Institut fur Medizinische Biometrie und Statistik, Universitatsklinikum Schleswig Holstein, Universitat zu Lubeck, Ratzeburger Allee 160, Lubeck, Germany
    Genet Epidemiol 31:S51-60. 2007
  3. doi Predictor correlation impacts machine learning algorithms: implications for genomic studies
    Kristin K Nicodemus
    Department of Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK
    Bioinformatics 25:1884-90. 2009
  4. pmc The behaviour of random forest permutation-based variable importance measures under predictor correlation
    Kristin K Nicodemus
    Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    BMC Bioinformatics 11:110. 2010
  5. doi Evidence of statistical epistasis between DISC1, CIT and NDEL1 impacting risk for schizophrenia: biological validation with functional neuroimaging
    Kristin K Nicodemus
    Genes, Cognition and Psychosis Program, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892, USA
    Hum Genet 127:441-52. 2010
  6. doi Biological validation of increased schizophrenia risk with NRG1, ERBB4, and AKT1 epistasis via functional neuroimaging in healthy controls
    Kristin K Nicodemus
    Genes, Cognition, and Psychosis Program, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892, USA
    Arch Gen Psychiatry 67:991-1001. 2010
  7. ncbi Evidence for statistical epistasis between catechol-O-methyltransferase (COMT) and polymorphisms in RGS4, G72 (DAOA), GRM3, and DISC1: influence on risk of schizophrenia
    Kristin K Nicodemus
    Clinical Brain Disorders Branch, National Institute of Mental Health, National Institute of Health, Bethesda, MD 20892, USA
    Hum Genet 120:889-906. 2007
  8. pmc Genetic variation in AKT1 is linked to dopamine-associated prefrontal cortical structure and function in humans
    Hao Yang Tan
    Clinical Brain Disorders Branch, Genes, Cognition and Psychosis Program, Division of Intramural Research Programs, National Institute of Mental Health, NIH, Bethesda, Maryland 20892, USA
    J Clin Invest 118:2200-8. 2008
  9. pmc Functional polymorphisms in PRODH are associated with risk and protection for schizophrenia and fronto-striatal structure and function
    Lucas Kempf
    Department of Health and Human Services, Unit of Systems Neuroscience in Psychiatry, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Genet 4:e1000252. 2008
  10. pmc A primate-specific, brain isoform of KCNH2 affects cortical physiology, cognition, neuronal repolarization and risk of schizophrenia
    Stephen J Huffaker
    Clinical Brain Disorders Branch, National Institute of Mental Health, Bethesda, Maryland, USA
    Nat Med 15:509-18. 2009

Collaborators

Detail Information

Publications20

  1. pmc Catmap: case-control and TDT meta-analysis package
    Kristin K Nicodemus
    Genes, Cognition and Psychosis Program, Clinical Brain Disorders Branch, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, USA
    BMC Bioinformatics 9:130. 2008
    ....
  2. ncbi Data mining, neural nets, trees--problems 2 and 3 of Genetic Analysis Workshop 15
    Andreas Ziegler
    Institut fur Medizinische Biometrie und Statistik, Universitatsklinikum Schleswig Holstein, Universitat zu Lubeck, Ratzeburger Allee 160, Lubeck, Germany
    Genet Epidemiol 31:S51-60. 2007
    ..However, improved implementations that are able to deal with hundreds of thousands of SNPs at a time are required...
  3. doi Predictor correlation impacts machine learning algorithms: implications for genomic studies
    Kristin K Nicodemus
    Department of Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK
    Bioinformatics 25:1884-90. 2009
    ..However, certain properties of MLAs under conditions common in genomic-related data have not been well-studied--in particular, correlations among predictors pose a problem...
  4. pmc The behaviour of random forest permutation-based variable importance measures under predictor correlation
    Kristin K Nicodemus
    Statistical Genetics, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
    BMC Bioinformatics 11:110. 2010
    ..Recent works on permutation-based variable importance measures (VIMs) used in RF have come to apparently contradictory conclusions. We present an extended simulation study to synthesize results...
  5. doi Evidence of statistical epistasis between DISC1, CIT and NDEL1 impacting risk for schizophrenia: biological validation with functional neuroimaging
    Kristin K Nicodemus
    Genes, Cognition and Psychosis Program, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892, USA
    Hum Genet 127:441-52. 2010
    ....
  6. doi Biological validation of increased schizophrenia risk with NRG1, ERBB4, and AKT1 epistasis via functional neuroimaging in healthy controls
    Kristin K Nicodemus
    Genes, Cognition, and Psychosis Program, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892, USA
    Arch Gen Psychiatry 67:991-1001. 2010
    ..NRG1 is a schizophrenia candidate gene and plays an important role in brain development and neural function. Schizophrenia is a complex disorder, with etiology likely due to epistasis...
  7. ncbi Evidence for statistical epistasis between catechol-O-methyltransferase (COMT) and polymorphisms in RGS4, G72 (DAOA), GRM3, and DISC1: influence on risk of schizophrenia
    Kristin K Nicodemus
    Clinical Brain Disorders Branch, National Institute of Mental Health, National Institute of Health, Bethesda, MD 20892, USA
    Hum Genet 120:889-906. 2007
    ..In addition, we were able to replicate other studies, including allelic directionality. The use of epistatic models may improve replication of psychiatric candidate gene studies...
  8. pmc Genetic variation in AKT1 is linked to dopamine-associated prefrontal cortical structure and function in humans
    Hao Yang Tan
    Clinical Brain Disorders Branch, Genes, Cognition and Psychosis Program, Division of Intramural Research Programs, National Institute of Mental Health, NIH, Bethesda, Maryland 20892, USA
    J Clin Invest 118:2200-8. 2008
    ..These data implicate AKT1 in modulating human prefrontal-striatal structure and function and suggest that the mechanism of this effect may be coupled to dopaminergic signaling and relevant to the expression of psychosis...
  9. pmc Functional polymorphisms in PRODH are associated with risk and protection for schizophrenia and fronto-striatal structure and function
    Lucas Kempf
    Department of Health and Human Services, Unit of Systems Neuroscience in Psychiatry, National Institute of Mental Health, National Institutes of Health, Bethesda, Maryland, United States of America
    PLoS Genet 4:e1000252. 2008
    ..Our findings suggest a role for functional genetic variation in POX on neostriatal-frontal circuits mediating risk and protection for schizophrenia...
  10. pmc A primate-specific, brain isoform of KCNH2 affects cortical physiology, cognition, neuronal repolarization and risk of schizophrenia
    Stephen J Huffaker
    Clinical Brain Disorders Branch, National Institute of Mental Health, Bethesda, Maryland, USA
    Nat Med 15:509-18. 2009
    ..These results identify a previously undescribed KCNH2 channel isoform involved in cortical physiology, cognition and psychosis, providing a potential new therapeutic drug target...
  11. pmc Linkage disequilibrium and age of HLA region SNPs in relation to classic HLA gene alleles within Europe
    Irina Evseeva
    Department of Clinical Pharmacology, University of Oxford, Oxford, UK
    Eur J Hum Genet 18:924-32. 2010
    ....
  12. ncbi snp.plotter: an R-based SNP/haplotype association and linkage disequilibrium plotting package
    Augustin Luna
    GCAP CBDB, NIMH NIH, 10 Center Drive, Room 4s 235, Bethesda, MD 20814, USA
    Bioinformatics 23:774-6. 2007
    ..AVAILABILITY: Downloadable R package and example datasets are available at http://cbdb.nimh.nih.gov/~kristin/snp.plotter.html and http://www.r-project.org...
  13. doi False positives in imaging genetics
    Andreas Meyer-Lindenberg
    Unit for Systems Neuroscience in Psychiatry, National Institute for Mental Health, NIH, DHHS, 9000 Rockville Pike, Bethesda, MD 20892 1365, USA
    Neuroimage 40:655-61. 2008
    ..In fact, our observations indicate that these statistical thresholds are conservative...
  14. pmc Letter to the Editor: On the stability and ranking of predictors from random forest variable importance measures
    Kristin K Nicodemus
    MRC Functional Genomics Unit, Department of Anatomy, Physiology and Genetics, University of Oxford, South Parks Road, Oxford, OX1 3QX, UK
    Brief Bioinform 12:369-73. 2011
    ..The MDA measure was robust to these data characteristics. Further, under strong within-predictor correlation, MDG rankings were less stable than those using MDA...
  15. pmc The evolutionarily conserved G protein-coupled receptor SREB2/GPR85 influences brain size, behavior, and vulnerability to schizophrenia
    Mitsuyuki Matsumoto
    Drug Discovery Research, Astellas Pharma Inc, Tsukuba, Ibaraki 305 8585, Japan
    Proc Natl Acad Sci U S A 105:6133-8. 2008
    ..Our data implicate SREB2 as a potential risk factor for psychiatric disorders and its pathway as a target for psychiatric therapy...
  16. pmc An evaluation of power and type I error of single-nucleotide polymorphism transmission/disequilibrium-based statistical methods under different family structures, missing parental data, and population stratification
    Kristin K Nicodemus
    Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA
    Am J Hum Genet 80:178-85. 2007
    ..The choice of a TD-based test statistic should be dependent on the predominant family structure ascertained, the frequency of missing parental genotypes, and the assumed genetic model...
  17. ncbi Comprehensive association analysis of APOE regulatory region polymorphisms in Alzheimer disease
    Kristin K Nicodemus
    Department of Medicine and Center for Human Genetics, Duke University Medical Center, Durham, North Carolina 27710, USA
    Neurogenetics 5:201-8. 2004
    ..In conclusion, SNPs +5361, or a SNP in strong linkage disequilibrium, may confer some additional risk for developing AD beyond the risk due to APOE-4; however, the effect independent of APOE-4 is likely to be small...
  18. ncbi Analysis of European mitochondrial haplogroups with Alzheimer disease risk
    Joelle M van der Walt
    Department of Medicine, Center for Human Genetics, Duke University Medical Center, Durham, NC 27710, USA
    Neurosci Lett 365:28-32. 2004
    ..We suggest that variations within haplogroup U may be involved in AD expression in combination with environmental exposures or nuclear proteins other than APOE...
  19. ncbi The Q7R Saitohin gene polymorphism is not associated with Alzheimer disease
    Sofia A Oliveira
    Department of Medicine and Center for Human Genetics, Institute for Genome Sciences and Policy, Box 3445, Duke University Medical Center, Durham, NC 27710, USA
    Neurosci Lett 347:143-6. 2003
    ..We found no evidence of significant association of this polymorphism with risk of AD using family-based and case-control tests of association...
  20. pmc Age at onset in two common neurodegenerative diseases is genetically controlled
    Yi Ju Li
    Department of Medicine, Center for Human Genetics, Duke University Medical Center, Durham, NC 27710, USA
    Am J Hum Genet 70:985-93. 2002
    ..62. These data suggest that a common gene affects AAO in these two common complex neurodegenerative diseases...