mp201465x1.doc - Supplemental Materials The genetic...

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Supplemental Materials The genetic architecture of pediatric cognitive abilities in the Philadelphia Neurodevelopmental Cohort Elise B. Robinson, ScD a,b,1 , Andrew Kirby, BA a,b , Kosha Ruparel, MSE c , Jian Yang, PhD d , Lauren McGrath, PhD e , Verneri Anttila, PhD a,b,f , Benjamin M. Neale, PhD a,b , Kathleen Merikangas, PhD g , Thomas Lehner, PhD h , Patrick M.A. Sleiman, PhD i , Mark J. Daly, PhD a,b , Ruben Gur PhD c , Raquel Gur, MD, PhD c, , Hakon Hakonarson, MD, PhD i 1 For inquiries regarding this report: [email protected]arvard.edu a) Analytic and Translational Genetics Unit, Massachusetts General Hospital and Department of Medicine, Harvard Medical School, Boston, MA 02114. b) Stanley Center for Psychiatric Research and Medical and Population Genetics Program, Broad Institute of MIT and Harvard, Cambridge, MA 02142. c) Department of Psychiatry, Perelman of School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104. d) Queensland Brain Institute, University of Queensland, Brisbane, Australia. e) Psychiatric and Neurodevelopmental Genetics Unit, Center for Human Genetic Research and Department of Psychiatry, Massachusetts General Hospital, Boston, MA 02114. f) Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland. g) Genetic Epidemiology Research Branch, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892. h) Office of Genomics Research Coordination, National Institute of Mental Health, National Institutes of Health, Bethesda, MD 20892. i) Center for Applied Genomics, The Children’s Hospital of Philadelphia, Philadelphia, PA, 19104. Contents 1. Summary of Computerized Neurocognitive Battery (CNB) Measures 2. Genotyping and Imputation 3. Genotypic Principal Components Analyses 4. Unrotated Principal Components Analysis 5. Common Factor and Rotated Principal Components Analyses 6. Principal Component Loadings for Accuracy Traits; Phenotypic Correlation Matrix 7. Comparison of magnitude between phenotypic and genotypic correlations 8. Phenotypic and Genetic Association between Domains and Factor Scores; 9. Variation Explained by Genic and Intergenic SNPs
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1) Summary of Computerized Neurocognitive Battery (CNB) Measures The CNB was developed by Ruben Gur, Raquel Gur and colleagues at the University of Pennsylvania. Its component measures are described in Gur et al. 2010 and 2012. The Wide Range Achievement Test (WRAT) is described by Wilkinson and Robertson (2006). Cronbach’s alpha was estimated based on the consistency of correct responses on each measure. Table S1. Reliability of CNB measures Trait Measure Cronbach’s Alpha Abstraction and Mental Flexibility Penn Conditional Exclusion Test NA Attention Penn Continuous Performance Test 0.94 Working Memory Letter N-Back 0.87 Facial Memory Penn Face Memory Test 0.68* Spatial Memory Visual Object Learning Test 0.52 Verbal Memory Penn Word Memory Test 0.80 Language Reasoning Penn Verbal Reasoning Test 0.77* Nonverbal Reasoning Penn Matrix Reasoning Test 0.86* Spatial Reasoning Penn Line Orientation Test 0.93* Age Differentiation Penn Age Differentiation Test 0.78*
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