Gene Environment Interaction Analysis

Gene–environment (G × E) interaction analysis is a statistical method for clarifying G × E interactions applicable to a phenotype or a disease that is the result of interactions between genes and the environment. This book is the first to deal with the theme of G × E interaction analysis. It compiles and details cutting-edge research in bioinformatics and computational biology and will appeal to anyone involved in bioinformatics and computational biology.

Gene-Environment Interactions in Psychiatry: Nature, Nurture, Neuroscience begins with the basic aspects of gene–environment studies, such as basic genetics, principles of animals modeling, and the basic processes of how environmental factors affect brain and behavior, with part two describing the most important psychiatric disorders in detail. Each chapter has a similar structure that includes a general description of the disorder that is followed by an analysis of the role of genes and how they are affected by environmental factors. Each chapter ends with a description of the most relevant animal models, again focusing on gene–environment interactions. The book concludes with a critical evaluation of the current research and an outlook for the (possible) future, offering a vignette into the fascinating world of nature, nurture, and neuroscience. Written to provide in-depth basic knowledge on gene–environment interactions for graduate students, postgraduate students, clinicians, and scientists Includes descriptions of the major psychiatric disorders Provides detailed descriptions of animal models and basic genetic information Presents well-illustrated color figures to explain complex features in a simple manner

Over the past century, we have made great strides in reducing rates of disease and enhancing people's general health. Public health measures such as sanitation, improved hygiene, and vaccines; reduced hazards in the workplace; new drugs and clinical procedures; and, more recently, a growing understanding of the human genome have each played a role in extending the duration and raising the quality of human life. But research conducted over the past few decades shows us that this progress, much of which was based on investigating one causative factor at a time—often, through a single discipline or by a narrow range of practitioners—can only go so far. Genes, Behavior, and the Social Environment examines a number of well-described gene-environment interactions, reviews the state of the science in researching such interactions, and recommends priorities not only for research itself but also for its workforce, resource, and infrastructural needs.

Understanding the play between heredity and environment, and relating it to disease causation, is the task of ecogenetics. Gene-Environment Interactions: Fundamentals of Ecogenetics presents the first comprehensive survey of this discipline, reflecting its relationship with toxicology, epidemiology, pharmacology, public health, and other medical and biological fields. Divided into four sections, the text elucidates key basic and advanced topics: * Section 1 covers fundamentals, including the history of the discipline, a discussion of the molecular laboratory tools currently available to assess genotypes, using such measurements in molecular epidemiology studies, and the statistical issues involved in their analysis. * Section 2 focuses on a number of key genetic polymorphisms relevant for ecogenetics, including enzymes of phase I and phase II metabolism, enzymes involved in DNA repair, as well as receptors and ion channels. This highlights characteristics of selected, widely studied genotypic/phenotypic differences, and allows discussion of how given genetic variations can influence responses to exogenous chemicals. * Section 3 examines gene-environment interactions through a disease-based approach, addressing how genetic polymorphisms can influence susceptibility to various diseases. Chapters cover important disease conditions such as various types of cancer, neurodegenerative diseases, cardiovascular disease, chronic pulmonary diseases, infectious diseases, diabetes, and obesity. * The final section discusses the ethical, legal, and social issues that arise when investigating and evaluating genetic polymorphisms in human populations, as well as the impact of ecogenetics on risk assessment, regulatory policies, and medicine and public health. Packed with clear examples illustrating concepts, as well as numerous tables and figures, Gene-Environment Interactions: Fundamentals of Ecogenetics is a unique resource for a wide range of physicians, students, and other specialists.

The genotype/phenotype dichotomy is being slowly replaced by a more complex relationship whereby the majority of phenotypes arise from interactions between one’s genotype and the environment in which one lives. Interestingly, it seems that not only our lives, but also our ancestors’ lives, determine how we look. This newly recognized form of inheritance is known as (epi)genetic, as it involves an additional layer of information on top of the one encoded by the genes. Its discovery has constituted one of the biggest paradigm shifts in biology in recent years. Understanding epigenetic factors may help explain the pathogenesis of several complex human diseases (such as diabetes, obesity and cancer) and provide alternative paths for disease prevention, management and therapy. This book introduces the reader to the importance of the environment for our own health and the health of our descendants, sheds light on the current knowledge on epigenetic inheritance and opens a window to future developments in the field.

With recent studies using genetic, epigenetic, and other molecular and neurochemical approaches, a new era has begun in understanding pathophysiology of suicide. Emerging evidence suggests that neurobiological factors are not only critical in providing potential risk factors but also provide a promising approach to develop more effective treatment and prevention strategies. The Neurobiological Basis of Suicide discusses the most recent findings in suicide neurobiology. Psychological, psychosocial, and cultural factors are important in determining the risk factors for suicide; however, they offer weak prediction and can be of little clinical use. Interestingly, cognitive characteristics are different among depressed suicidal and depressed nonsuicidal subjects, and could be involved in the development of suicidal behavior. The characterization of the neurobiological basis of suicide is in delineating the risk factors associated with suicide. The Neurobiological Basis of Suicide focuses on how and why these neurobiological factors are crucial in the pathogenic mechanisms of suicidal behavior and how these findings can be transformed into potential therapeutic applications.

Diverse methodological and statistical approaches for investigating the role of gene-environment interactions in a range of complex diseases and traits. Findings from the Human Genome Project and from Genome-Wide Association (GWA) studies indicate that many diseases and traits manifest a more complex genomic pattern than previously assumed. These findings, and advances in high-throughput sequencing, suggest that there are many sources of influence—genetic, epigenetic, and environmental. This volume investigates the role of the interactions of genes and environment (G × E) in diseases and traits (referred to by the contributors as complex phenotypes) including depression, diabetes, obesity, and substance use. The contributors first present different statistical approaches or strategies to address G × E and G × G interactions with high-throughput sequenced data, including two-stage procedures to identify G × E and G × G interactions, marker-set approaches to assessing interactions at the gene level, and the use of a partial-least square (PLS) approach. The contributors then turn to specific complex phenotypes, research designs, or combined methods that may advance the study of G × E interactions, considering such topics as randomized clinical trials in obesity research, longitudinal research designs and statistical models, and the development of polygenic scores to investigate G × E interactions. Contributors Fatima Umber Ahmed, Yin-Hsiu Chen, James Y. Dai, Caroline Y. Doyle, Zihuai He, Li Hsu, Shuo Jiao, Erin Loraine Kinnally, Yi-An Ko, Charles Kooperberg, Seunggeun Lee, Arnab Maity, Jeanne M. McCaffery, Bhramar Mukherjee, Sung Kyun Park, Duncan C. Thomas, Alexandre Todorov, Jung-Ying Tzeng, Tao Wang, Michael Windle, Min Zhang

A comprehensive introduction to modern applied statistical genetic data analysis, accessible to those without a background in molecular biology or genetics. Human genetic research is now relevant beyond biology, epidemiology, and the medical sciences, with applications in such fields as psychology, psychiatry, statistics, demography, sociology, and economics. With advances in computing power, the availability of data, and new techniques, it is now possible to integrate large-scale molecular genetic information into research across a broad range of topics. This book offers the first comprehensive introduction to modern applied statistical genetic data analysis that covers theory, data preparation, and analysis of molecular genetic data, with hands-on computer exercises. It is accessible to students and researchers in any empirically oriented medical, biological, or social science discipline; a background in molecular biology or genetics is not required. The book first provides foundations for statistical genetic data analysis, including a survey of fundamental concepts, primers on statistics and human evolution, and an introduction to polygenic scores. It then covers the practicalities of working with genetic data, discussing such topics as analytical challenges and data management. Finally, the book presents applications and advanced topics, including polygenic score and gene-environment interaction applications, Mendelian Randomization and instrumental variables, and ethical issues. The software and data used in the book are freely available and can be found on the book's website.