在全基因组研究中检测基因标记集和环境之间的相互作用的边际相互作用测试
Linchuan Shen1, Amei Amei1,2, Bowen Liu1,3
1Department of Mathematical Sciences, University of Nevada, Las Vegas, Las Vegas, NV 89154, USA.
G3 (Bethesda, Md.)
|November 14, 2024
概括
新的方法MAGEIT_RAN和MAGEIT_FIX使用罕见和常见的变异来识别基因环境相互作用 (G×E). MAGEIT_RAN在检测与高血压和酒精影响的血压相关的G×E方面被证明是最强大的.
科学领域:
- 遗传学 遗传学 是一个
- 环境健康 环境健康
- 生物统计学 生物统计学
背景情况:
- 复杂的人类疾病是由基因环境相互作用 (G×E) 引起的,因此需要先进的分析工具来预测风险和理解机制.
- 目前的G×E分析方法通常集中在单个遗传变异 (常见或罕见) 和单个环境因素上,限制了全面的调查.
- 开发强大的统计方法对于剖析疾病病因学中遗传和环境因素之间的复杂相互作用至关重要.
研究的目的:
- 开发和验证新的统计方法,MAGEIT_RAN和MAGEIT_FIX,用于识别基因环境相互作用 (G×E).
- 为了使G×E的分析涉及稀有和常见的遗传变异同时与环境因素.
- 应用这些方法来识别与多民族人口中高血压和血压相关的新型G×E.
主要方法:
- 开发了MAGEIT_RAN和MAGEIT_FIX,它们使用MinQue统计数据来检测G×E.
- MAGEIT_RAN将遗传主要效应建模为随机效应,而MAGEIT_FIX将其建模为固定效应.
- 进行模拟研究以评估I型错误控制和统计能力,随后在动脉样硬化多民族研究中对基因-酒精相互作用进行全基因组应用.
主要成果:
- 在模拟中,MAGEIT_RAN和MAGEIT_FIX都显示了受控的I型错误率.
- 与MAGEIT_FIX相比,MAGEIT_RAN表现出更强大的统计能力.
- 全基因组分析发现了对高血压和静坐系统血压的显著基因-酒精相互作用,突出了EIF2AK2,CCNDBP1和EPB42.2等基因.
结论:
- MAGEIT_RAN和MAGEIT_FIX是识别G×E的有效工具,可以容纳罕见和常见的变体.
- MAGEIT_RAN的应用揭示了与酒精相关的高血压有关的特定基因和途径 (亡,信号转导).
- 这些发现强调了MAGEIT_RAN在发现复杂疾病的生物相关G×E方面的实用性.
更多相关视频
14:06Mapping Bacterial Functional Networks and Pathways in Escherichia Coli using Synthetic Genetic Arrays
Published on: November 12, 2012
46.4K
13:55Combined Immunofluorescence and DNA FISH on 3D-preserved Interphase Nuclei to Study Changes in 3D Nuclear Organization
Published on: February 3, 2013
18.3K
相关概念视频
Gene-Environment Interactions
253
Gene expression is a dynamic process that is significantly influenced by environmental factors. This interaction underlies the complex nature of biological development and the phenotypic differences observed among individuals, even among those with identical genetic makeups. Factors such as radiation, temperature, behavior, nutrition, and stress play pivotal roles in determining how genes are expressed. The concept of the reaction range is central to understanding this interaction. It posits...
253
Background and Environment Affect Phenotype
6.5K
Although the genetic makeup of an organism plays a major role in determining the phenotype, there are also several environmental factors, such as temperature, oxygen availability, presence of mutagens, that can alter an organism’s phenotype.
An example of how genetic background affects phenotype can be seen in horses. The Extension gene in horses is responsible for their coat color. A wild-type gene (EE) produces black pigment in the coat, while a mutant gene (ee) produces red pigment. A...
An example of how genetic background affects phenotype can be seen in horses. The Extension gene in horses is responsible for their coat color. A wild-type gene (EE) produces black pigment in the coat, while a mutant gene (ee) produces red pigment. A...
6.5K
Epistasis Analysis
4.9K
Although Mendel chose seven unrelated traits in peas to study gene segregation, most traits involve multiple gene interactions that create a spectrum of phenotypes. When the interaction of various genes or alleles at different locations influences a phenotype, this is called epistasis. Epistasis often involves one gene masking or interfering with the expression of another (antagonistic epistasis). Epistasis often occurs when different genes are part of the same biochemical pathway. The...
4.9K
Sign Test for Matched Pairs
109
The sign test for matched pairs offers a robust method for comparing two paired samples, often for the effects of an intervention in one of them. This method is very useful in situations where the underlying distribution of the data is unknown. The test compares two related samples—often pre- and post-treatment measurements on the same subjects—to determine if there are significant differences in their median values.
To conduct the sign test, we first calculate the differences in...
To conduct the sign test, we first calculate the differences in...
109
Genome-wide Association Studies-GWAS
12.5K
Genome-wide association studies or GWAS are used to identify whether common SNPs are associated with certain diseases. Suppose specific SNPs are more frequently observed in individuals with a particular disease than those without the disease. In that case, those SNPs are said to be associated with the disease. Chi-square analysis is performed to check the probability of the allele likely to be associated with the disease.
GWAS does not require the identification of the target gene involved in...
GWAS does not require the identification of the target gene involved in...
12.5K
Behavioral Genetics and Its Designs
329
Behavior genetics explores how genetic inheritance influences human behavior. It focuses on how genes, passed from parents to offspring, contribute to the development of behavioral traits and tendencies. This branch of genetics seeks to understand the complex interplay between inherited genetic factors and environmental influences in shaping our behaviors.
The primary methodologies used in behavior genetics include family studies, twin studies, and adoption studies, each providing unique...
The primary methodologies used in behavior genetics include family studies, twin studies, and adoption studies, each providing unique...
329
