ArticleAmerican journal of human genetics2010
ROADTRIPS: case-control association testing with partially or completely unknown population and pedigree structure.
Article in American journal of human genetics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 101 papers, 1 of them a synthesis that pooled it.
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Who cites it
101 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Genome-wide association study of body height in African Americans: the Women's Health Initiative SNP Health Association Resource (SHARe).Human molecular genetics · 2012Pooled it
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- A resource of induced pluripotent stem cell (iPSC) lines including clinical, genomic, and cellular data from genetically isolated families with mood and psychotic disorders.Translational psychiatry · 2023Article
- Genetic association models are robust to common population kinship estimation biases.Genetics · 2023Article
- Limitations of principal components in quantitative genetic association models for human studies.eLife · 2023Article
- Genome scanning of behavioral selection in a canine olfactory detection breeding cohort.Scientific reports · 2022Article
- Consequences of a Rare Complement Factor H Variant for Age-Related Macular Degeneration in the Amish.Investigative ophthalmology & visual science · 2022Article
- Recommendations for Statistical Reporting in Cardiovascular Medicine: A Special Report From the American Heart Association.Circulation · 2021Review
- Forest and Trees: Exploring Bacterial Virulence with Genome-wide Association Studies and Machine Learning.Trends in microbiology · 2021Review
- Estimating FST and kinship for arbitrary population structures.PLoS genetics · 2021Article
- Associating Multivariate Traits with Genetic Variants Using Collapsing and Kernel Methods with Pedigree- or Population-Based Studies.Computational and mathematical methods in medicine · 2021Article
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- Genome-Wide Association for Itraconazole Sensitivity in Non-resistant Clinical Isolates ofFrontiers in fungal biology · 2020Article
- Rare variants and loci for age-related macular degeneration in the Ohio and Indiana Amish.Human genetics · 2019Article
- Data-adaptive multi-locus association testing in subjects with arbitrary genealogical relationships.Statistical applications in genetics and molecular biology · 2019Article
41 more citing papers are in PubMed but not listed here.
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Authors and funding
2 authors.
Funding
Abstract
Genome-wide association studies are routinely conducted to identify genetic variants that influence complex disorders. It is well known that failure to properly account for population or pedigree structure can lead to spurious association as well as reduced power. We propose a method, ROADTRIPS, for case-control association testing in samples with partially or completely unknown population and pedigree structure. ROADTRIPS uses a covariance matrix estimated from genome-screen data to correct for unknown population and pedigree structure while maintaining high power by taking advantage of known pedigree information when it is available. ROADTRIPS can incorporate data on arbitrary combinations of related and unrelated individuals and is computationally feasible for the analysis of genetic studies with millions of markers. In simulations with related individuals and population structure, including admixture, we demonstrate that ROADTRIPS provides a substantial improvement over existing methods in terms of power and type 1 error. The ROADTRIPS method can be used across a variety of study designs, ranging from studies that have a combination of unrelated individuals and small pedigrees to studies of isolated founder populations with partially known or completely unknown pedigrees. We apply the method to analyze two data sets: a study of rheumatoid arthritis in small UK pedigrees, from Genetic Analysis Workshop 15, and data from the Collaborative Study of the Genetics of Alcoholism on alcohol dependence in a sample of moderate-size pedigrees of European descent, from Genetic Analysis Workshop 14. We detect genome-wide significant association, after Bonferroni correction, in both studies.
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Registered trials
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 Socratic graph.