ArticleAmerican journal of human genetics2015
Two-Variance-Component Model Improves Genetic Prediction in Family Datasets.
Article in American journal of human genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 2 of them syntheses that pooled it.
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Who cites it
16 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Genome-wide association meta-analysis of childhood ADHD symptoms and diagnosis identifies new loci and potential effector genes.Nature genetics · 2025Pooled it
- Incorporating functional priors improves polygenic prediction accuracy in UK Biobank and 23andMe data sets.Nature communications · 2021Pooled it
- Gene-based association tests in family samples using GWAS summary statistics.Genetic epidemiology · 2024Article
- Incorporating family disease history and controlling case-control imbalance for population-based genetic association studies.Bioinformatics (Oxford, England) · 2022Article
- Capturing additional genetic risk from family history for improved polygenic risk prediction.Communications biology · 2022Article
- Trade-offs of Linear Mixed Models in Genome-Wide Association Studies.Journal of computational biology : a journal of computational molecular cell biology · 2022Article
- Efficient polygenic risk scores for biobank scale data by exploiting phenotypes from inferred relatives.Nature communications · 2020Article
- Efficient Estimation and Applications of Cross-Validated Genetic Predictions to Polygenic Risk Scores and Linear Mixed Models.Journal of computational biology : a journal of computational molecular cell biology · 2020Article
- Estimation of metabolic syndrome heritability in three large populations including full pedigree and genomic information.Human genetics · 2019Article
- Multiethnic polygenic risk scores improve risk prediction in diverse populations.Genetic epidemiology · 2017Article
- 2SNP heritability and effects of genetic variants for neutrophil-to-lymphocyte and platelet-to-lymphocyte ratio.Journal of human genetics · 2017Article
- Article
- Prediction of gene expression with cis-SNPs using mixed models and regularization methods.BMC genomics · 2017Article
- Using information of relatives in genomic prediction to apply effective stratified medicine.Scientific reports · 2017Article
- Mixed Model Association with Family-Biased Case-Control Ascertainment.American journal of human genetics · 2017Article
- Estimation of genomic prediction accuracy from reference populations with varying degrees of relationship.PloS one · 2017Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Genetic prediction based on either identity by state (IBS) sharing or pedigree information has been investigated extensively with best linear unbiased prediction (BLUP) methods. Such methods were pioneered in plant and animal-breeding literature and have since been applied to predict human traits, with the aim of eventual clinical utility. However, methods to combine IBS sharing and pedigree information for genetic prediction in humans have not been explored. We introduce a two-variance-component model for genetic prediction: one component for IBS sharing and one for approximate pedigree structure, both estimated with genetic markers. In simulations using real genotypes from the Candidate-gene Association Resource (CARe) and Framingham Heart Study (FHS) family cohorts, we demonstrate that the two-variance-component model achieves gains in prediction r(2) over standard BLUP at current sample sizes, and we project, based on simulations, that these gains will continue to hold at larger sample sizes. Accordingly, in analyses of four quantitative phenotypes from CARe and two quantitative phenotypes from FHS, the two-variance-component model significantly improves prediction r(2) in each case, with up to a 20% relative improvement. We also find that standard mixed-model association tests can produce inflated test statistics in datasets with related individuals, whereas the two-variance-component model corrects for inflation.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.