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Review: Population Structure in Genetic Studies: Confounding Factors and Mixed Models

https://doi.org/10.1101/092106
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/gepi.1045openalex-snapshot
Association studies for quantitative traits in structured populations
inferredcites →https://doi.org/10.1007/978-1-4614-9443-0openalex-snapshot
Design, Analysis, and Interpretation of Genome-Wide Association Scans
inferredcites →https://doi.org/10.1007/s00335-003-2312-xopenalex-snapshot
A large-sample QTL study in mice: I. Growth
inferredcites →https://doi.org/10.1016/j.ajhg.2012.10.010openalex-snapshot
Improved Heritability Estimation from Genome-wide SNPs
inferredcites →https://doi.org/10.1016/j.ajhg.2013.03.010openalex-snapshot
Improving the Accuracy and Efficiency of Partitioning Heritability into the Contributions of Genomic Regions
inferredcites →https://doi.org/10.1016/j.ajhg.2014.09.007openalex-snapshot
Effective Genetic-Risk Prediction Using Mixed Models
inferredcites →https://doi.org/10.1016/j.ajhg.2014.10.004openalex-snapshot
Partitioning Heritability of Regulatory and Cell-Type-Specific Variants across 11 Common Diseases
inferredcites →https://doi.org/10.1016/j.ajhg.2015.03.004openalex-snapshot
Mixed Model with Correction for Case-Control Ascertainment Increases Association Power
inferredcites →https://doi.org/10.1038/ejhg.2011.39openalex-snapshot
Genomic inflation factors under polygenic inheritance
inferredcites →https://doi.org/10.1038/nature06067openalex-snapshot
A sequence-based variation map of 8.27 million SNPs in inbred mouse strains
inferredcites →https://doi.org/10.1038/nature08185openalex-snapshot
Common polygenic variation contributes to risk of schizophrenia and bipolar disorder
inferredcites →https://doi.org/10.1038/nature08494openalex-snapshot
Finding the missing heritability of complex diseases
inferredcites →https://doi.org/10.1038/nature09298openalex-snapshot
Integrating common and rare genetic variation in diverse human populations
inferredcites →https://doi.org/10.1038/nature12975openalex-snapshot
A polygenic burden of rare disruptive mutations in schizophrenia
inferredcites →https://doi.org/10.1038/nature21039openalex-snapshot
Rare and low-frequency coding variants alter human adult height
inferredcites →https://doi.org/10.1038/ng.2310openalex-snapshot
Genome-wide efficient mixed-model analysis for association studies
inferredcites →https://doi.org/10.1038/ng.2354openalex-snapshot
Fast and accurate genotype imputation in genome-wide association studies through pre-phasing
inferredcites →https://doi.org/10.1038/ng.271openalex-snapshot
Genome-wide association analysis of metabolic traits in a birth cohort from a founder population
inferredcites →https://doi.org/10.1038/ng.2876openalex-snapshot
Advantages and pitfalls in the application of mixed-model association methods
inferredcites →https://doi.org/10.1038/ng.3190openalex-snapshot
Efficient Bayesian mixed-model analysis increases association power in large cohorts
inferredcites →https://doi.org/10.1038/ng.3211openalex-snapshot
LD Score regression distinguishes confounding from polygenicity in genome-wide association studies
inferredcites →https://doi.org/10.1038/ng.3865openalex-snapshot
Reevaluation of SNP heritability in complex human traits
inferredcites →https://doi.org/10.1038/ng.548openalex-snapshot
Variance component model to account for sample structure in genome-wide association studies
inferredcites →https://doi.org/10.1038/ng.608openalex-snapshot
Common SNPs explain a large proportion of the heritability for human height
inferredcites →https://doi.org/10.1038/ng.823openalex-snapshot
Genome partitioning of genetic variation for complex traits using common SNPs
inferredcites →https://doi.org/10.1038/ng1433openalex-snapshot
The use of pedigree, sib-pair and association studies of common diseases for genetic mapping and epidemiology
inferredcites →https://doi.org/10.1038/ng1492openalex-snapshot
An Icelandic example of the impact of population structure on association studies
inferredcites →https://doi.org/10.1038/ng1702openalex-snapshot
A unified mixed-model method for association mapping that accounts for multiple levels of relatedness
inferredcites →https://doi.org/10.1038/ng1847openalex-snapshot
Principal components analysis corrects for stratification in genome-wide association studies
inferredcites →https://doi.org/10.1038/ng2087openalex-snapshot
On the subspecific origin of the laboratory mouse
inferredcites →https://doi.org/10.1038/nm1168openalex-snapshot
Free fatty acids regulate gut incretin glucagon-like peptide-1 secretion through GPR120
inferredcites →https://doi.org/10.1038/nmeth.1681openalex-snapshot
FaST linear mixed models for genome-wide association studies
inferredcites →https://doi.org/10.1038/nmeth.2037openalex-snapshot
Improved linear mixed models for genome-wide association studies
inferredcites →https://doi.org/10.1038/nmeth.3285openalex-snapshot
Accurate liability estimation improves power in ascertained case-control studies
inferredcites →https://doi.org/10.1038/nrg3243openalex-snapshot
The continuing value of twin studies in the omics era
inferredcites →https://doi.org/10.1038/nrg3382openalex-snapshot
The nature of confounding in genome-wide association studies
inferredcites →https://doi.org/10.1073/pnas.1602743113openalex-snapshot
GCTA-GREML accounts for linkage disequilibrium when estimating genetic variance from genome-wide SNPs
inferredcites →https://doi.org/10.1086/302959openalex-snapshot
Association Mapping in Structured Populations
inferredcites →https://doi.org/10.1093/bioinformatics/btr219openalex-snapshot
Accurate estimation of heritability in genome wide studies using random effects models
inferredcites →https://doi.org/10.1093/hmg/ddq510openalex-snapshot
Increased power of mixed models facilitates association mapping of 10 loci for metabolic traits in an isolated population
inferredcites →https://doi.org/10.1093/nar/gkw1133openalex-snapshot
The new NHGRI-EBI Catalog of published genome-wide association studies (GWAS Catalog)
inferredcites →https://doi.org/10.1111/j.0006-341x.1999.00997.xopenalex-snapshot
Genomic Control for Association Studies
inferredcites →https://doi.org/10.1111/j.1445-2197.2012.06309.xopenalex-snapshot
Part‐time general surgical training in S outh A ustralia: its success and future implications (or: pinnacles, pitfalls and lessons for the future)
inferredcites →https://doi.org/10.1126/science.273.5281.1516openalex-snapshot
The Future of Genetic Studies of Complex Human Diseases
inferredcites →https://doi.org/10.1145/2817827openalex-snapshot
Discovering genes involved in disease and the mystery of missing heritability
inferredcites →https://doi.org/10.1371/journal.pgen.0010032openalex-snapshot
Confounding from Cryptic Relatedness in Case-Control Association Studies
inferredcites →https://doi.org/10.1371/journal.pgen.0030004openalex-snapshot
An Arabidopsis Example of Association Mapping in Structured Samples
inferredcites →https://doi.org/10.1371/journal.pgen.1003032openalex-snapshot
Informed Conditioning on Clinical Covariates Increases Power in Case-Control Association Studies
inferredcites →https://doi.org/10.1371/journal.pgen.1005849openalex-snapshot
Accounting for Population Structure in Gene-by-Environment Interactions in Genome-Wide Association Studies Using Mixed Models
inferredcites →https://doi.org/10.1371/journal.pone.0006676openalex-snapshot
A Validated Genome Wide Association Study to Breed Cattle Adapted to an Environment Altered by Climate Change
inferredcites →https://doi.org/10.1534/genetics.107.080101openalex-snapshot
Efficient Control of Population Structure in Model Organism Association Mapping
inferredcites →https://doi.org/10.1534/genetics.108.091116openalex-snapshot
Maximum-Likelihood Estimation of Site-Specific Mutation Rates in Human Mitochondrial DNA From Partial Phylogenetic Classification
inferredcites →https://doi.org/10.1534/genetics.109.107540openalex-snapshot
Identification of Novel Genes That Mediate Innate Immunity Using Inbred Mice
inferredcites →https://doi.org/10.2307/2529430openalex-snapshot
Best Linear Unbiased Estimation and Prediction under a Selection Model

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/cphg.48openalex-snapshot
Population Stratification in Genetic Association Studies
inferred← citeshttps://doi.org/10.1002/humu.23611openalex-snapshot
Exploring genetic modifiers of Gaucher disease: The next horizon
inferred← citeshttps://doi.org/10.1186/s12863-021-00995-yopenalex-snapshot
Genome-wide association studies of yield-related traits in high-latitude japonica rice
inferred← citeshttps://doi.org/10.1371/journal.pone.0206683openalex-snapshot
Copy number variation in the susceptibility to systemic lupus erythematosus
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