ArticleGenetic epidemiology2005
Analysis of case-control studies of genetic and environmental factors with missing genetic information and haplotype-phase ambiguity.
Article in Genetic epidemiology, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- Statistically efficient association analysis of quantitative traits with haplotypes and untyped SNPs in family studies.BMC genetics · 2020Article
- LIN28A gene polymorphisms modify neuroblastoma susceptibility: A four-centre case-control study.Journal of cellular and molecular medicine · 2020Article
- A simple approximation to bias in the genetic effect estimates when multiple disease states share a clinical diagnosis.Genetic epidemiology · 2019Article
- Powerful testing via hierarchical linkage disequilibrium in haplotype association studies.Biometrical journal. Biometrische Zeitschrift · 2019Article
- Accommodating missingness in environmental measurements in gene-environment interaction analysis.Genetic epidemiology · 2017Article
- Genetic variants within the hTERT gene and the risk of colorectal cancer in Lynch syndrome.Genes & cancer · 2015Review
- Deciphering Genome Environment Wide Interactions Using Exposed Subjects Only.Genetic epidemiology · 2015Article
- Latent variable models for gene-environment interactions in longitudinal studies with multiple correlated exposures.Statistics in medicine · 2015Article
- A two-SNP IL-6 promoter haplotype is associated with increased lung cancer risk.Journal of cancer research and clinical oncology · 2013Article
- Robust estimation for homoscedastic regression in the secondary analysis of case-control data.Journal of the Royal Statistical Society. Series B, Statistical methodology · 2013Article
- Semiparametric Bayesian analysis of gene-environment interactions with error in measurement of environmental covariates and missing genetic data.Statistics and its interface · 2011Article
- A Bayesian hierarchical model for detecting haplotype-haplotype and haplotype-environment interactions in genetic association studies.Human heredity · 2011Article
- Genotype-based association mapping of complex diseases: gene-environment interactions with multiple genetic markers and measurement error in environmental exposures.Genetic epidemiology · 2010Article
- A general framework for studying genetic effects and gene-environment interactions with missing data.Biostatistics (Oxford, England) · 2010Article
- Statistics and bioinformatics in nutritional sciences: analysis of complex data in the era of systems biology.The Journal of nutritional biochemistry · 2010Review
- Association between CYP7A1 and the risk of proximal colon cancer in Japanese.International journal of molecular epidemiology and genetics · 2010Article
- Analysis of Case-Control Association Studies: SNPs, Imputation and Haplotypes.Statistical science : a review journal of the Institute of Mathematical Statistics · 2009Article
- Shrinkage Estimators for Robust and Efficient Inference in Haplotype-Based Case-Control Studies.Journal of the American Statistical Association · 2009Article
- A joint association test for multiple SNPs in genetic case-control studies.Genetic epidemiology · 2009Article
- Invited commentary: efficient testing of gene-environment interaction.American journal of epidemiology · 2009Article
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3 authors.
Funding
Abstract
Case-control studies of unrelated subjects are now widely used to study the role of genetic susceptibility and gene-environment interactions in the etiology of complex diseases. Exploiting an assumption of gene-environment independence, and treating the distribution of environmental exposures as completely nonparametric, Chatterjee and Carroll recently developed an efficient retrospective maximum-likelihood method for analysis of case-control studies. In this article, we develop an extension of the retrospective maximum-likelihood approach to studies where genetic information may be missing on some study subjects. In particular, special emphasis is given to haplotype-based studies where missing data arise due to linkage-phase ambiguity of genotype data. We use a profile likelihood technique and an appropriate expectation-maximization (EM) algorithm to derive a relatively simple procedure for parameter estimation, with or without a rare disease assumption, and possibly incorporating information on the marginal probability of the disease for the underlying population. We also describe two alternative robust approaches that are less sensitive to the underlying gene-environment independence and Hardy-Weinberg-equilibrium assumptions. The performance of the proposed methods is studied using simulation studies in the context of haplotype-based studies of gene-environment interactions. An application of the proposed method is illustrated using a case-control study of ovarian cancer designed to investigate the interaction between BRCA1/2 mutations and reproductive risk factors in the etiology of ovarian cancer.
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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.