ArticleStatistical science : a review journal of the Institute of Mathematical Statistics2009
Analysis of Case-Control Association Studies: SNPs, Imputation and Haplotypes.
Article in Statistical science : a review journal of the Institute of Mathematical Statistics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers, 1 of them a synthesis that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
10 citing papers in PubMed, 1 synthesis or guideline pooled it.
- A Genomewide Integrative Analysis of GWAS and eQTLs Data Identifies Multiple Genes and Gene Sets Associated with Obesity.BioMed research international · 2018Pooled it
- A semiparametric efficient estimator in case-control studies for gene-environment independent models.Journal of multivariate analysis · 2019Article
- Elucidating the Underlying Functional Mechanisms of Breast Cancer Susceptibility Through Post-GWAS Analyses.Frontiers in genetics · 2018Review
- Dimension reduction and estimation in the secondary analysis of case-control studies.Electronic journal of statistics · 2018Article
- Power Calculation of Multi-step Combined Principal Components with Applications to Genetic Association Studies.Scientific reports · 2016Article
- Genetic vectors as a tool in association studies: definitions and application for study of rheumatoid arthritis.International journal of genomics · 2015Article
- Detecting rare haplotype-environment interaction with logistic Bayesian LASSO.Genetic epidemiology · 2014Article
- Beyond GWASs: illuminating the dark road from association to function.American journal of human genetics · 2013Review
- A robust and efficient statistical method for genetic association studies using case and control samples from multiple cohorts.BMC genomics · 2013Article
- Variation in the IL1B, TNF and IL6 genes and individual susceptibility to prosthetic joint infection.BMC immunology · 2012Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Although prospective logistic regression is the standard method of analysis for case-control data, it has been recently noted that in genetic epidemiologic studies one can use the "retrospective" likelihood to gain major power by incorporating various population genetics model assumptions such as Hardy-Weinberg-Equilibrium (HWE), gene-gene and gene-environment independence. In this article, we review these modern methods and contrast them with the more classical approaches through two types of applications (i) association tests for typed and untyped single nucleotide polymorphisms (SNPs) and (ii) estimation of haplotype effects and haplotype-environment interactions in the presence of haplotype-phase ambiguity. We provide novel insights to existing methods by construction of various score-tests and pseudo-likelihoods. In addition, we describe a novel two-stage method for analysis of untyped SNPs that can use any flexible external algorithm for genotype imputation followed by a powerful association test based on the retrospective likelihood. We illustrate applications of the methods using simulated and real data.
Identifiers
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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 OpenQuestion graph.