While biometric genetic studies have long indicated substantial heritability for drinking behaviors and addiction, progress in mapping this influence onto specific genetic variants has been slow and once found, these genetic variants have only modest predictive power. DNA methylation studies represent a promising complement to genetic studies focusing on sequence variation because methylation is directly related to gene expression and can potentially be used as a biomarker for alcohol disorders. The overarching goal of this proposal is to provide the candidate the training and research opportunities necessary to utilize next generation sequencing methods, such as methylome sequencing, to study drinking behaviors and addiction, thus supporting the candidate's long-term career goal of becoming an independent investigator in the area. General training goals include strengthening knowledge of substantive issues in drinking behaviors and addiction and statistical genetics, and building proficiency in bioinformatics and computer programming. Proposed training in these areas consists of an interlocking program of coursework, intensive mentoring, summer programs, reading groups, seminar series and conferences, with special attention to training in research ethics. Direct mentoring is a key feature of this program, with access to leading experts in each of the proposed training areas (i.e., Drs. Edwin van den Oord and Dr. Michael Neale - statistical genetics, bioinformatics and programming, Dr. Michael Miles and David Goldman - substantive expertise in the genetics of drinking behaviors and addiction) representing a core strength of the proposed training plan. The candidate proposes to apply acquired skills in the research portion of the project by conducting a multistage whole methylome analysis to study drinking behaviors and addiction. Methodologically, this project focuses on integrating genomic methods with statistical models to better understand disease mechanisms. This will be facilitated by bringing together an unprecedented combination of whole methylome datasets, including a meta-analysis of data from Swedish national population registries and the EpiTwin project sample, with a combined total sample size of approximately 5,800 individuals. The "discovery" phase meta-analysis will then be followed by validating the top findings in a follow-up sample of approximately 500 individuals using a "gold standard" technology that will fine map the locations of methylated sites associated with drinking behaviors and addiction. The project will be further complimented in a final analytical stage in which causal models will be fitted to data on validated methylation sites, and addiction, health and drinking outcomes to investigate the direction of causation between methylation sites and drinking behaviors and addiction. A rodent study will complement the human work and will help gain traction on the issue of whether methylation sites associated with drinking behaviors and addiction can be used as biomarkers for alcoholism.
This K01 award will provide the applicant with the training and resources necessary to establish a program of research that will more precisely articulate the disease mechanisms behind drinking behaviors and addiction. The proposed project's goal of identifying methylated regions of the genome associated with drinking behaviors and outcomes will help identify the genetic underpinnings of addiction in these substances and can ultimately be used to improve the prevention and treatment of drinking outcomes and addiction by identifying biomarkers for alcohol disorders.
|Neale, Michael C; Clark, Shaunna L; Dolan, Conor V et al. (2016) Regime Switching Modeling of Substance Use: Time-Varying and Second-Order Markov Models and Individual Probability Plots. Struct Equ Modeling 23:221-233|
|van den Oord, Edwin J C G; Clark, Shaunna L; Xie, Lin Ying et al. (2016) A Whole Methylome CpG-SNP Association Study of Psychosis in Blood and Brain Tissue. Schizophr Bull 42:1018-26|
|Clark, Shaunna L; McClay, Joseph L; Adkins, Daniel E et al. (2016) Deep Sequencing of Three Loci Implicated in Large-Scale Genome-Wide Association Study Smoking Meta-Analyses. Nicotine Tob Res 18:626-31|
|Clark, Shaunna L; Gillespie, Nathan A; Adkins, Daniel E et al. (2016) Psychometric modeling of abuse and dependence symptoms across six illicit substances indicates novel dimensions of misuse. Addict Behav 53:132-40|
|McClay, Joseph L; Shabalin, Andrey A; Dozmorov, Mikhail G et al. (2015) High density methylation QTL analysis in human blood via next-generation sequencing of the methylated genomic DNA fraction. Genome Biol 16:291|
|Kumar, Gaurav; Clark, Shaunna L; McClay, Joseph L et al. (2015) Refinement of schizophrenia GWAS loci using methylome-wide association data. Hum Genet 134:77-87|
|Aberg, Karolina A; Xie, Linying; Chan, Robin F et al. (2015) Evaluation of Methyl-Binding Domain Based Enrichment Approaches Revisited. PLoS One 10:e0132205|
|Adkins, Daniel E; Clark, Shaunna L; Copeland, William E et al. (2015) Genome-Wide Meta-Analysis of Longitudinal Alcohol Consumption Across Youth and Early Adulthood. Twin Res Hum Genet 18:335-47|
|Clark, Shaunna L; Aberg, Karolina A; Nerella, Srilaxmi et al. (2015) Combined Whole Methylome and Genomewide Association Study Implicates CNTN4 in Alcohol Use. Alcohol Clin Exp Res 39:1396-405|
|Brown, Ruth C; Clark, Shaunna L; Dahne, Jennifer et al. (2015) Testing the temporal relationship between maternal and adolescent depressive and anxiety symptoms in a community sample. J Clin Child Adolesc Psychol 44:566-79|
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