Rare Sequence Variation and DNA Methylation: Effects on Alcohol and Tobacco Use Phenotypes

罕见序列变异和 DNA 甲基化：对酒精和烟草使用表型的影响

• 批准号: 9192491
• 负责人: Jacqueline Marisa Otto
• 金额: $ 4.36万
• 依托单位: UNIVERSITY OF MISSOURI-COLUMBIA
• 依托单位国家: 美国
• 财政年份: 2016
• 资助国家: 美国
• 起止时间: 2016-08-01 至 2018-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9192491
• 关键词: Address; Alcohol consumption; Alcohol dependence; Alcohol or Other Drugs use; Area; Award; Big Data to Knowledge; Bioinformatics; Biological; Code; Complex; CpG Islands; DNA; DNA Methylation; DNA Sequence; Data; Data Analyses; Dependence; Development; Disease; Educational workshop; Epigenetic Process; Etiology; Exhibits; Family; Future; Gene Expression; Gene Frequency; Genes; Genetic; Genetic Models; Genetic Predisposition to Disease; Genetic Risk; Genetic Transcription; Genetic study; Genome; Goals; Grouping; Heritability; Informatics; Intercistronic Region; Investigation; Mediating; Mediation; Methods; Methylation; Minor; Molecular Genetics; Nucleic Acid Regulatory Sequences; Open Reading Frames; Phenotype; Predisposition; Prevention strategy; Process; Proteins; Regulatory Element; Research; Research Support; Risk; Site; Substance Use Disorder; Testing; Tobacco use; Training; United States National Institutes of Health; Untranslated RNA; Variant; Weight; abstracting; base; career; epigenomics; gene function; genetic association; genome sequencing; genome wide association study; genome-wide; meetings; methylation pattern; programs; rare variant; substance misuse; tool; trait; treatment strategy; whole genome

7. Project Summary/Abstract Long-Term Objectives The broad goals of this project are to (1) evaluate the effects of rare and common variation in protein-coding and non-coding gene regions, and regulatory intergenic regions on alcohol and tobacco use phenotypes; (2) test for differential DNA methylation in the context of current alcohol and tobacco use; and (3) investigate the relationship between regulatory sequence variation and DNA methylation and their combined effects on alcohol and tobacco use and dependence. Given the substantial shared genetic etiology for alcohol and tobacco use, the long-term career objective is to develop a program of research that informs prevention and treatment strategies by characterizing the pathophysiological processes that contribute to these traits. Specific Aims There are two primary research aims of this proposal. The first aim focuses on regions of protein-coding and non-coding DNA in order to test the ability of different prioritization and grouping methods to inform genetic association studies of alcohol and tobacco use and dependence. Prioritization methods will include the use of bioinformatics tools to select and assign weights to likely causal rare and common variants within genes and regions susceptible to DNA methylation. These weights will be incorporated into set-based analyses that combine rare and common variants to test for association with alcohol and tobacco use phenotypes. The second aim will evaluate the ability of these prioritization and set-based analytic methods to inform the analysis of DNA methylation microarray data. Specifically, the focus of this aim is to test for epigenetic mediation of genetic risk to determine the extent to which DNA sequence variants in the region are related to level of methylation in the prediction of alcohol and tobacco use and dependence. Analyses will be conducted using whole-genome sequencing and DNA methylation data from a family-based study of alcohol dependence susceptibility. During the period of the award, training will be obtained via (1) coursework, (2) attendance at didactic workshops, and (3) meetings with expert consultants in advanced statistical genetics and DNA methylation methods and analysis. Significance Results from this project will inform molecular genetic studies on the etiology and development of alcohol and tobacco use and dependence. The increasing availability of whole-genome sequence and epigenetic data poses a computational and theoretical challenge for research on complex traits, particularly in the interpretation of the vast extent of rare and common non-coding variation and epigenetic processes in these regions. Thus, results from this project will advance informatics approaches to the study of such traits and our understanding of biological contributions to the risk for substance use disorders.

7.项目总结/摘要 长期目标 这个项目的主要目标是（1）评估蛋白质编码中罕见和常见变异的影响 和非编码基因区，以及调控基因间区对酒精和烟草使用表型;（2） 在当前酒精和烟草使用的背景下测试差异DNA甲基化;和（3）调查 调控序列变异与DNA甲基化的关系及其联合作用 酒精和烟草的使用和依赖。鉴于酒精和酒精中毒的遗传病因有很大的相似性， 烟草使用，长期的职业目标是制定一个研究计划，告知预防和 治疗策略的特点，有助于这些性状的病理生理过程。 具体目标 这项建议有两个主要的研究目的。第一个目标集中在蛋白质编码区域， 非编码DNA，以测试不同的优先级排序和分组方法告知遗传信息的能力。 酒精和烟草使用和依赖的关联研究。确定优先次序的方法将包括使用 生物信息学工具，用于选择基因内可能的因果罕见和常见变异并为其分配权重， 对DNA甲基化敏感的区域。这些权重将被纳入基于集合的分析， 联合收割机罕见和常见的变异，以测试与酒精和烟草使用表型的关联。的 第二个目标是评估这些优先级排序和基于集合的分析方法为分析提供信息的能力 DNA甲基化微阵列数据。具体来说，这一目标的重点是测试表观遗传介导的 遗传风险，以确定该地区的DNA序列变异与 甲基化在预测酒精和烟草的使用和依赖。分析将使用 一项基于家庭的酒精依赖研究的全基因组测序和DNA甲基化数据 易感性在获奖期间，培训将通过（1）课程，（2）出席 教学讲习班，以及（3）与高级统计遗传学和DNA专家顾问举行会议 甲基化方法和分析。 意义 该项目的结果将为酒精病因学和发展的分子遗传学研究提供信息， 烟草使用和依赖。全基因组序列和表观遗传学数据的日益可用性 对复杂性状的研究提出了计算和理论挑战，特别是在解释方面。 在这些地区罕见和常见的非编码变异和表观遗传过程的巨大程度。因此，在本发明中， 该项目的结果将推进信息学方法来研究这些特征和我们的理解 对物质使用障碍风险的生物学贡献。