ArticleAmerican journal of human genetics2022
Leveraging LD eigenvalue regression to improve the estimation of SNP heritability and confounding inflation.
Article in American journal of human genetics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Correlations between causal effect sizes of proximal SNPs vary with functional annotations and implicate stabilizing selection.Nature genetics · 2026Article
- Improved heritability partitioning and enrichment analyses using summary statistics with graphREML.Nature genetics · 2026Article
- Logica: A likelihood framework for cross-ancestry local genetic correlation estimation using summary statistics.American journal of human genetics · 2025Article
- Incorporating additive genetic effects and linkage disequilibrium information to discover gene-environment interactions using BV-LDER-GE.Genome biology · 2025Article
- HIGH-DIMENSIONAL STATISTICAL INFERENCE FOR LINKAGE DISEQUILIBRIUM SCORE REGRESSION AND ITS CROSS-ANCESTRY EXTENSIONS.Annals of statistics · 2025Article
- PIGEON: a statistical framework for estimating gene-environment interaction for polygenic traits.Nature human behaviour · 2025Article
- Participation bias in the estimation of heritability and genetic correlation.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Potential associations between gut and skin microbiota and lung cancer: a bidirectional Mendelian randomization analysis.Discover oncology · 2025Article
- Shared Genetic Architecture of Obstructive Sleep Apnea and Neck Pain: A Large-Scale Genome-Wide Association Study.Journal of pain research · 2025Article
- The goldmine of GWAS summary statistics: a systematic review of methods and tools.BioData mining · 2024Article
- Article
- LDER-GE estimates phenotypic variance component of gene-environment interactions in human complex traits accurately with GE interaction summary statistics and full LD information.Briefings in bioinformatics · 2024Article
- Pervasive correlations between causal disease effects of proximal SNPs vary with functional annotations and implicate stabilizing selection.Research square · 2023Article
- Pervasive correlations between causal disease effects of proximal SNPs vary with functional annotations and implicate stabilizing selection.medRxiv : the preprint server for health sciences · 2023Article
- Accurate and efficient estimation of local heritability using summary statistics and the linkage disequilibrium matrix.Nature communications · 2023Article
- Estimating heritability explained by local ancestry and evaluating stratification bias in admixture mapping from summary statistics.American journal of human genetics · 2023Article
- Dissecting the high-resolution genetic architecture of complex phenotypes by accurately estimating gene-based conditional heritability.American journal of human genetics · 2023Article
- Using GWAS summary data to impute traits for genotyped individuals.HGG advances · 2023Article
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5 authors.
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Abstract
Heritability is a fundamental concept in genetic studies, measuring the genetic contribution to complex traits and bringing insights about disease mechanisms. The advance of high-throughput technologies has provided many resources for heritability estimation. Linkage disequilibrium (LD) score regression (LDSC) estimates both heritability and confounding biases, such as cryptic relatedness and population stratification, among single-nucleotide polymorphisms (SNPs) by using only summary statistics released from genome-wide association studies. However, only partial information in the LD matrix is utilized in LDSC, leading to loss in precision. In this study, we propose LD eigenvalue regression (LDER), an extension of LDSC, by making full use of the LD information. Compared to state-of-the-art heritability estimating methods, LDER provides more accurate estimates of SNP heritability and better distinguishes the inflation caused by polygenicity and confounding effects. We demonstrate the advantages of LDER both theoretically and with extensive simulations. We applied LDER to 814 complex traits from UK Biobank, and LDER identified 363 significantly heritable phenotypes, among which 97 were not identified by LDSC.
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