ArticleAmerican journal of human genetics2011
GATES: a rapid and powerful gene-based association test using extended Simes procedure.
Article in American journal of human genetics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 264 papers, 22 of them syntheses that pooled it.
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Who cites it
264 citing papers in PubMed, 22 syntheses or guidelines pooled it.
- Cross-trait analyses identify shared genetics between migraine, headache, and glycemic traits, and a causal relationship with fasting proinsulin.Human genetics · 2023Pooled it
- A gene based combination test using GWAS summary data.BMC bioinformatics · 2023Pooled it
- Pooled it
- Genetic Overlap Analysis Identifies a Shared Etiology between Migraine and Headache with Type 2 Diabetes.Genes · 2022Pooled it
- Common variants in SOX-2 and congenital cataract genes contribute to age-related nuclear cataract.Communications biology · 2020Pooled it
- Genome-wide association meta-analysis of age at first cannabis use.Addiction (Abingdon, England) · 2018Pooled it
- Locus and gene-based GWAS meta-analysis identifies new diabetic nephropathy genes.Immunogenetics · 2018Pooled it
- A genome-wide association meta-analysis on lipoprotein (a) concentrations adjusted for apolipoprotein (a) isoforms.Journal of lipid research · 2017Pooled it
- Novel linkage disequilibrium clustering algorithm identifies new lupus genes on meta-analysis of GWAS datasets.Immunogenetics · 2017Pooled it
- Discovery and fine-mapping of loci associated with MUFAs through trans-ethnic meta-analysis in Chinese and European populations.Journal of lipid research · 2017Pooled it
- Genome-Wide Association Study Meta-Analysis of Long-Term Average Blood Pressure in East Asians.Circulation. Cardiovascular genetics · 2017Pooled it
- Novel genetic loci associated with hippocampal volume.Nature communications · 2017Pooled it
- Pathways to smoking behaviours: biological insights from the Tobacco and Genetics Consortium meta-analysis.Molecular psychiatry · 2017Pooled it
- A Genome-Wide Association Meta-Analysis of Attention-Deficit/Hyperactivity Disorder Symptoms in Population-Based Pediatric Cohorts.Journal of the American Academy of Child and Adolescent Psychiatry · 2016Pooled it
- Meta-analysis of genome-wide association studies of anxiety disorders.Molecular psychiatry · 2016Pooled it
- A genome-wide association meta-analysis on apolipoprotein A-IV concentrations.Human molecular genetics · 2016Pooled it
- Genome-wide association meta-analysis in Chinese and European individuals identifies ten new loci associated with systemic lupus erythematosus.Nature genetics · 2016Pooled it
- Genome-wide association study of lifetime cannabis use based on a large meta-analytic sample of 32 330 subjects from the International Cannabis Consortium.Translational psychiatry · 2016Pooled it
- Meta-analysis of Positive and Negative Symptoms Reveals Schizophrenia Modifier Genes.Schizophrenia bulletin · 2016Pooled it
- Meta-analysis of lipid-traits in Hispanics identifies novel loci, population-specific effects, and tissue-specific enrichment of eQTLs.Scientific reports · 2016Pooled it
204 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The gene has been proposed as an attractive unit of analysis for association studies, but a simple yet valid, powerful, and sufficiently fast method of evaluating the statistical significance of all genes in large, genome-wide datasets has been lacking. Here we propose the use of an extended Simes test that integrates functional information and association evidence to combine the p values of the single nucleotide polymorphisms within a gene to obtain an overall p value for the association of the entire gene. Our computer simulations demonstrate that this test is more powerful than the SNP-based test, offers effective control of the type 1 error rate regardless of gene size and linkage-disequilibrium pattern among markers, and does not need permutation or simulation to evaluate empirical significance. Its statistical power in simulated data is at least comparable, and often superior, to that of several alternative gene-based tests. When applied to real genome-wide association study (GWAS) datasets on Crohn disease, the test detected more significant genes than SNP-based tests and alternative gene-based tests. The proposed test, implemented in an open-source package, has the potential to identify additional novel disease-susceptibility genes for complex diseases from large GWAS datasets.
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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.