ArticleFrontiers in genetics2014
Estimating heritability of complex traits from genome-wide association studies using IBS-based Haseman-Elston regression.
Article in Frontiers in genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers, 2 of them syntheses that pooled it.
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Who cites it
49 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Genome-wide interaction study of a proxy for stress-sensitivity and its prediction of major depressive disorder.PloS one · 2018Pooled it
- Reproduction and In-Depth Evaluation of Genome-Wide Association Studies and Genome-Wide Meta-analyses Using Summary Statistics.G3 (Bethesda, Md.) · 2017Pooled it
- GPU-accelerated linkage disequilibrium scans reveal non-independent assortment of human non-homologous chromosomes.Genome biology · 2026Article
- Estimating the heritability of longitudinal rate-of-change: genetic insights into PSA velocity in prostate cancer-free individuals.Biostatistics (Oxford, England) · 2026Article
- Analytical and computational solution for the estimation of SNP-heritability in biobank-scale and distributed datasets.PLoS computational biology · 2025Article
- Genetic Architecture of Cerebral White Matter Hyperintensities in Diverse Hispanic/Latino Adults.Neurology. Genetics · 2025Article
- Precise estimation of in-depth relatedness in biobank-scale datasets using deepKin.Cell reports methods · 2025Article
- Maximizing the accuracy of genetic variance estimation and using a novel generalized effective sample size to improve simulations.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- The Garden of Forking Paths: Reinterpreting Haseman-Elston Regression for a Genotype-by-Environment Model.Behavior genetics · 2024Article
- Searching across-cohort relatives in 54,092 GWAS samples via encrypted genotype regression.PLoS genetics · 2024Article
- Efficient estimation for large-scale linkage disequilibrium patterns of the human genome.eLife · 2023Article
- A fast linkage method for population GWAS cohorts with related individuals.Genetic epidemiology · 2023Article
- A Pipeline for Phasing and Genotype Imputation on Mixed Human Data (Parents-Offspring Trios and Unrelated Subjects) by Reviewing Current Methods and Software.Life (Basel, Switzerland) · 2022Review
- Estimating SNP heritability in presence of population substructure in biobank-scale datasets.Genetics · 2022Article
- Fast estimation of genetic correlation for biobank-scale data.American journal of human genetics · 2022Article
- An efficient genomic prediction method without the direct inverse of the genomic relationship matrix.Frontiers in plant science · 2022Article
- Gene Region Association Analysis of Longitudinal Quantitative Traits Based on a Function-On-Function Regression Model.Frontiers in genetics · 2022Article
- Linear Mixed-Effect Models Through the Lens of Hardy-Weinberg Disequilibrium.Frontiers in genetics · 2022Article
- Genome-wide hierarchical mixed model association analysis.Briefings in bioinformatics · 2021Article
- Estimation of non-additive genetic variance in human complex traits from a large sample of unrelated individuals.American journal of human genetics · 2021Article
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Abstract
Exploring heritability of complex traits is a central focus of statistical genetics. Among various previously proposed methods to estimate heritability, variance component methods are advantageous when estimating heritability using markers. Due to the high-dimensional nature of data obtained from genome-wide association studies (GWAS) in which genetic architecture is often unknown, the most appropriate heritability estimator model is often unclear. The Haseman-Elston (HE) regression is a variance component method that was initially only proposed for linkage studies. However, this study presents a theoretical basis for a modified HE that models linkage disequilibrium for a quantitative trait, and consequently can be used for GWAS. After replacing identical by descent (IBD) scores with identity by state (IBS) scores, we applied the IBS-based HE regression to single-marker association studies (scenario I) and estimated the variance component using multiple markers (scenario II). In scenario II, we discuss the circumstances in which the HE regression and the mixed linear model are equivalent; the disparity between these two methods is observed when a covariance component exists for the additive variance. When we extended the IBS-based HE regression to case-control studies in a subsequent simulation study, we found that it provided a nearly unbiased estimate of heritability, more precise than that estimated via the mixed linear model. Thus, for the case-control scenario, the HE regression is preferable. GEnetic Analysis Repository (GEAR; http://sourceforge.net/p/gbchen/wiki/GEAR/) software implemented the HE regression method and is freely available.
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