Next-generation genotype imputation service and methods
- Sayantani Das, L. Forer, C. Fuchsberger
- Biology, Computer ScienceNature Genetics
- 29 August 2016
Improvements to imputation machinery are described that reduce computational requirements by more than an order of magnitude with no loss of accuracy in comparison to standard imputation tools.
Model selection and psychological theory: a discussion of the differences between the Akaike information criterion (AIC) and the Bayesian information criterion (BIC).
- S. Vrieze
- Computer SciencePsychological methods
- 6 February 2012
The AIC and BIC have quite different properties that require different assumptions, and applied researchers and methodologists alike will benefit from improved understanding of the asymptotic and finite-sample behavior of these criteria.
Association studies of up to 1.2 million individuals yield new insights into the genetic etiology of tobacco and alcohol use
- Mengzhen Liu, Yu Jiang, S. Vrieze
- MedicineNature Genetics
- 7 November 2018
Evidence is reported for the involvement of many systems in tobacco and alcohol use, including genes involved in nicotinic, dopaminergic, and glutamatergic neurotransmission, which provide a solid starting point to evaluate the effects of these loci in model organisms and more precise substance use measures.
Genome-wide association meta-analysis in 269,867 individuals identifies new genetic and functional links to intelligence
- J. Savage, P. Jansen, D. Posthuma
- Biology, PsychologyNature Genetics
- 25 June 2018
A large-scale genetic association study of intelligence identifies 190 new loci and implicates 939 new genes related to neurogenesis, neuron differentiation and synaptic structure, a major step forward in understanding the neurobiology of cognitive function as well as genetically related neurological and psychiatric disorders.
Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program
- D. Taliun, Daniel N Harris, G. Abecasis
- 6 March 2019
Combining TOPMed haplotypes with modern imputation methods improves the power and reach of genome-wide association studies to include variants down to a frequency of approximately 0.01%.
Comparison of methods that use whole genome data to estimate the heritability and genetic architecture of complex traits
- L. Evans, R. Tahmasbi, M. Keller
- 9 March 2017
It is shown that SNP-heritability can be highly sensitive to assumptions about the frequencies, effect sizes, and levels of linkage disequilibrium of underlying causal variants, but that methods that bin SNPs according to minor allele frequency are less sensitive to these assumptions across a wide range of genetic architectures and possible confounding factors.
Trans-ancestral GWAS of alcohol dependence reveals common genetic underpinnings with psychiatric disorders
- R. Walters, R. Polimanti, A. Agrawal
- Psychology, MedicinebioRxiv
- 10 March 2018
The largest genome-wide association study to date of DSM-IV-diagnosed AD found loci associated with AD and characterized the relationship between AD and other psychiatric and behavioral outcomes, underscoring the genetic distinction between pathological and nonpathological drinking behaviors.
A Genome-Wide Association Study of Behavioral Disinhibition
- M. McGue, Yiwei Zhang, W. Iacono
- BiologyBehavior Genetics
- 14 August 2013
Even though the common variants genotyped on the GWAS array appear in aggregate to account for a sizable proportion of heritable effects in multiple indicators of behavioral disinhibition, the data suggest that most of the additive heritability remains “missing”.
Three Mutually Informative Ways to Understand the Genetic Relationships Among Behavioral Disinhibition, Alcohol Use, Drug Use, Nicotine Use/Dependence, and Their Co-occurrence: Twin Biometry, GCTA,…
- S. Vrieze, M. McGue, Michael B. Miller, B. Hicks, W. Iacono
- PsychologyBehavior Genetics
- 31 January 2013
SNPs generated on one trait correlated at approximately the same magnitude with other traits, indicating detectable pleiotropic effects among these traits, and this relationship is detectable at the level of measured genomic variation.
Rare variant genotype imputation with thousands of study-specific whole-genome sequences: implications for cost-effective study designs
The utility of genotype imputation in genome-wide association studies is increasing as progressively larger reference panels are improved and expanded through whole-genome sequencing. Developing…