ArticleNature genetics2023
Extremely sparse models of linkage disequilibrium in ancestrally diverse association studies.
Article in Nature genetics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 38 citations in OpenAlex.
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- Genetic prediction with ARG-powered linear algebra.Genetics · 2026Article
- Highly efficient genotype compression leveraging genealogical relatedness.bioRxiv : the preprint server for biology · 2026Article
- Leveraging ancestral recombination graphs for scalable mixed-model analysis of complex traits.Cell genomics · 2026Article
- Likelihoods for a general class of ARGs under the SMC.Genetics · 2026Article
- On ARGs, pedigrees, and genetic relatedness matrices.Genetics · 2026Article
- Twenty years of genome-wide association studies: Health translation challenges and AI opportunities.European journal of human genetics : EJHG · 2025Review
- A Pandemic-Scale Ancestral Recombination Graph for SARS-CoV-2.bioRxiv : the preprint server for biology · 2025Article
- Whole-genome resequencing uncovers population structure and candidate molecular markers for litter size in hetian sheep.BMC genomics · 2025Article
- Robust and accurate Bayesian inference of genome-wide genealogies for hundreds of genomes.Nature genetics · 2025Article
- Recent Statistical Innovations in Human Genetics.Annals of human genetics · 2025Review
- Tsbrowse: an interactive browser for ancestral recombination graphs.Bioinformatics (Oxford, England) · 2025Article
- Mendelian Randomization Analysis Reveals Causal Associations Between Beverages and Irritable Bowel Syndrome: Alcohol, but Not Others.Food science & nutrition · 2025Article
- Toward whole-genome inference of polygenic scores with fast and memory-efficient algorithms.American journal of human genetics · 2025Article
- Identifying genetic variants for brain connectivity using Ball Covariance Ranking and Aggregation.Journal of the American Statistical Association · 2025Article
- Likelihoods for a general class of ARGs under the SMC.bioRxiv : the preprint server for biology · 2025Article
- White blood cell traits and lung cancer risk: a two-sample mendelian randomization analysis.Scientific reports · 2025Article
- Enabling efficient analysis of biobank-scale data with genotype representation graphs.Nature computational science · 2025Article
- Association of Immune Cells, Inflammatory Cytokines, and Lung Cancer: A Mediating Mendelian Randomization Study.Mediators of inflammation · 2025Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Linkage disequilibrium (LD) is the correlation among nearby genetic variants. In genetic association studies, LD is often modeled using large correlation matrices, but this approach is inefficient, especially in ancestrally diverse studies. In the present study, we introduce LD graphical models (LDGMs), which are an extremely sparse and efficient representation of LD. LDGMs are derived from genome-wide genealogies; statistical relationships among alleles in the LDGM correspond to genealogical relationships among haplotypes. We published LDGMs and ancestry-specific LDGM precision matrices for 18 million common variants (minor allele frequency >1%) in five ancestry groups, validated their accuracy and demonstrated order-of-magnitude improvements in runtime for commonly used LD matrix computations. We implemented an extremely fast multiancestry polygenic prediction method, BLUPx-ldgm, which performs better than a similar method based on the reference LD correlation matrix. LDGMs will enable sophisticated methods that scale to ancestrally diverse genetic association data across millions of variants and individuals.
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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.