A tutorial on statistical methods for population association studies (Q36597327)

15 August 2017

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title

A tutorial on statistical methods for population association studies (English)

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15 August 2017

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David J Balding

1

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publication date

1 October 2006

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15 August 2017

published in

Nature Reviews Genetics

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15 August 2017

volume

7

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15 August 2017

issue

10

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15 August 2017

page(s)

781-791

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Detecting marker-disease association by testing for Hardy-Weinberg disequilibrium at a marker locus

15 August 2017

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Performing the exact test of Hardy-Weinberg proportion for multiple alleles

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A note on exact tests of Hardy-Weinberg equilibrium

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Allelic association patterns for a dense SNP map.

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Multiple imputation of missing genotype data for unrelated individuals.

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A comparison of phasing algorithms for trios and unrelated individuals

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A New Statistical Method for Haplotype Reconstruction from Population Data

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A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase

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A comparison of linkage disequilibrium measures for fine-scale mapping

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GOLD--graphical overview of linkage disequilibrium

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The first linkage disequilibrium (LD) maps: delineation of hot and cold blocks by diplotype analysis

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A map of the human genome in linkage disequilibrium units.

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Evidence for substantial fine-scale variation in recombination rates across the human genome

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The fine-scale structure of recombination rate variation in the human genome

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Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex

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Intense and highly localized gene conversion activity in human meiotic crossover hot spots

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Patterns of linkage disequilibrium in the human genome

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The structure of haplotype blocks in the human genome

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Detecting disease associations due to linkage disequilibrium using haplotype tags: a class of tests and the determinants of statistical power

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Tag SNP selection for association studies

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Selecting a maximally informative set of single-nucleotide polymorphisms for association analyses using linkage disequilibrium

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An evaluation of HapMap sample size and tagging SNP performance in large-scale empirical and simulated data sets

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A haplotype map of the human genome

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Linkage disequilibrium sharing and haplotype-tagged SNP portability between populations.

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The portability of tagSNPs across populations: a worldwide survey

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From genotypes to genes: doubling the sample size

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Tests for Linear Trends in Proportions and Frequencies

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Trend tests for case-control studies of genetic markers: power, sample size and robustness

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A Bayesian toolkit for genetic association studies.

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Equivalence of prospective and retrospective models in the Bayesian analysis of case-control studies

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Improved power offered by a score test for linkage disequilibrium mapping of quantitative-trait loci by selective genotyping

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Genomic control for association studies

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Genomic control, a new approach to genetic-based association studies

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Robust genomic control for association studies

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The effects of human population structure on large genetic association studies

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Logistic regression protects against population structure in genetic association studies

31 March 2020

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Association mapping in structured populations

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Accounting for unmeasured population substructure in case-control studies of genetic association using a novel latent-class model

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Control of confounding of genetic associations in stratified populations

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Visualizing gene determinants of disease in drug discovery

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Principal components analysis corrects for stratification in genome-wide association studies

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A unified mixed-model method for association mapping that accounts for multiple levels of relatedness

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Fine mapping of disease genes via haplotype clustering.

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Use of unphased multilocus genotype data in indirect association studies

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A unified stepwise regression procedure for evaluating the relative effects of polymorphisms within a gene using case/control or family data: application to HLA in type 1 diabetes

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Bayesian shrinkage estimation of quantitative trait loci parameters

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The role of haplotypes in candidate gene studies

31 March 2020

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Evaluating associations of haplotypes with traits

31 March 2020

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On the identification of disease mutations by the analysis of haplotype similarity and goodness of fit.

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Score tests for association between traits and haplotypes when linkage phase is ambiguous

31 March 2020

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The impact of SNP density on fine-scale patterns of linkage disequilibrium

31 March 2020

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Fine-scale mapping of disease genes with multiple mutations via spatial clustering techniques

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Evolutionary-based association analysis using haplotype data

31 March 2020

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Linkage disequilibrium mapping via cladistic analysis of single-nucleotide polymorphism haplotypes

31 March 2020

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Direct analysis of unphased SNP genotype data in population-based association studies via Bayesian partition modelling of haplotypes

31 March 2020

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Haplotype sharing analysis using mantel statistics

31 March 2020

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Tree scanning: a method for using haplotype trees in phenotype/genotype association studies

31 March 2020

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Regression-based association analysis with clustered haplotypes through use of genotypes.

31 March 2020

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Coalescent-based association mapping and fine mapping of complex trait loci

31 March 2020

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Multilocus association mapping using variable-length Markov chains

31 March 2020

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The Ubiquitous Nature of Epistasis in Determining Susceptibility to Common Human Diseases

31 March 2020

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Epistasis: too often neglected in complex trait studies?

31 March 2020

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Statistical false positive or true disease pathway?

31 March 2020

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Estimation and tests of haplotype-environment interaction when linkage phase is ambiguous

31 March 2020

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A testing framework for identifying susceptibility genes in the presence of epistasis

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Non-hierarchical logistic models and case-only designs for assessing susceptibility in population-based case-control studies

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Epistasis: what it means, what it doesn't mean, and statistical methods to detect it in humans

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Genome-wide strategies for detecting multiple loci that influence complex diseases.

31 March 2020

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Statistical significance for genomewide studies

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Detecting multiple associations in genome-wide studies

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Bayesian model selection for genome-wide epistatic quantitative trait loci analysis

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Genome-wide association studies for common diseases and complex traits

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Diet and cancer--the European Prospective Investigation into Cancer and Nutrition.

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UK Biobank: from concept to reality

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Clinical factors and ABCB1 polymorphisms in prediction of antiepileptic drug response: a prospective cohort study

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A general test of association for quantitative traits in nuclear families

31 March 2020

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Genomic screening and replication using the same data set in family-based association testing

31 March 2020

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Mapping by admixture linkage disequilibrium: advances, limitations and guidelines

31 March 2020

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A whole-genome admixture scan finds a candidate locus for multiple sclerosis susceptibility

31 March 2020

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Population stratification and spurious allelic association

31 March 2020

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Hidden population substructures in an apparently homogeneous population bias association studies.

31 March 2020

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Optimal two-stage genotyping designs for genome-wide association scans

31 March 2020

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Joint analysis is more efficient than replication-based analysis for two-stage genome-wide association studies

31 March 2020

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Bayesian graphical models for genomewide association studies

31 March 2020

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Efficient computation of significance levels for multiple associations in large studies of correlated data, including genomewide association studies

31 March 2020

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Mathematical multi-locus approaches to localizing complex human trait genes

31 March 2020

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Generalized Linear Models

31 March 2020

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Identifiers

DOI

10.1038/NRG1916

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15 August 2017

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