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Multiscale Spatiotemporal Probabilistic Graph Models for Neuropsychiatry Applications

Multiscale Spatiotemporal Probabilistic Graph Models for Neuropsychiatry Applications
Author: Margot Wagner
Publisher:
Total Pages: 0
Release: 2023
Genre:
ISBN:

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Neuropsychiatric disorders, specifically mental disorders, generally lack a quantitative and biophysiological basis for diagnostics and treatment due to fundamental limitations in theoretical knowledge of the disorder and brain-mind duality. Due to the complex multiscale nature of the brain, large and multimodal datasets as well as biophysically-based simulations are required to elucidate its functioning. As such, computational methods exist to bridge these scales. Specifically, probabilistic graph models are utilized here to capture inherent uncertainty in the system while being computationally efficient and tractable to allow for scaling and combining biophysically and theoretical-based models with Big Data in order to model and diagnose known mental disorders. First, a theoretically-driven computationally efficient reaction-diffusion model of synaptic transmission using Markov models and eigenmode decomposition is presented to scale molecular simulations to neural networks with applications in pharmacological simulations, artificial neural networks, and neuromorphic engineering. The second part connects the network level to behavior using deep learning, graph models, and manifold learning applied to neuroimaging data in adolescent depression using a combination of theory- and data-driven techniques. In addition to creating scalable models, this work interrogates structural and functional biomarkers and creates a neuroimaging pipeline resulting in automatic disorder detection. Finally, the focus shifts to diagnostics of anxiety and depression using behavioral data in the form of natural language processing, making use of transformer deep learning architectures.


The Computational Brain, 25th Anniversary Edition

The Computational Brain, 25th Anniversary Edition
Author: Patricia S. Churchland
Publisher: MIT Press
Total Pages: 569
Release: 2016-11-04
Genre: Science
ISBN: 0262533391

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An anniversary edition of the classic work that influenced a generation of neuroscientists and cognitive neuroscientists. Before The Computational Brain was published in 1992, conceptual frameworks for brain function were based on the behavior of single neurons, applied globally. In The Computational Brain, Patricia Churchland and Terrence Sejnowski developed a different conceptual framework, based on large populations of neurons. They did this by showing that patterns of activities among the units in trained artificial neural network models had properties that resembled those recorded from populations of neurons recorded one at a time. It is one of the first books to bring together computational concepts and behavioral data within a neurobiological framework. Aimed at a broad audience of neuroscientists, computer scientists, cognitive scientists, and philosophers, The Computational Brain is written for both expert and novice. This anniversary edition offers a new preface by the authors that puts the book in the context of current research. This approach influenced a generation of researchers. Even today, when neuroscientists can routinely record from hundreds of neurons using optics rather than electricity, and the 2013 White House BRAIN initiative heralded a new era in innovative neurotechnologies, the main message of The Computational Brain is still relevant.


Discovering the Human Connectome

Discovering the Human Connectome
Author: Olaf Sporns
Publisher: MIT Press
Total Pages: 253
Release: 2012-09-07
Genre: Medical
ISBN: 0262304805

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A pioneer in the field outlines new empirical and computational approaches to mapping the neural connections of the human brain. Crucial to understanding how the brain works is connectivity, and the centerpiece of brain connectivity is the connectome, a comprehensive description of how neurons and brain regions are connected. In this book, Olaf Sporns surveys current efforts to chart these connections—to map the human connectome. He argues that the nascent field of connectomics has already begun to influence the way many neuroscientists collect, analyze, and think about their data. Moreover, the idea of mapping the connections of the human brain in their entirety has captured the imaginations of researchers across several disciplines including human cognition, brain and mental disorders, and complex systems and networks. Discovering the Human Connectome offers the first comprehensive overview of current empirical and computational approaches in this rapidly developing field.


Networks of the Brain

Networks of the Brain
Author: Olaf Sporns
Publisher: MIT Press
Total Pages: 433
Release: 2016-02-12
Genre: Medical
ISBN: 0262528983

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An integrative overview of network approaches to neuroscience explores the origins of brain complexity and the link between brain structure and function. Over the last decade, the study of complex networks has expanded across diverse scientific fields. Increasingly, science is concerned with the structure, behavior, and evolution of complex systems ranging from cells to ecosystems. In Networks of the Brain, Olaf Sporns describes how the integrative nature of brain function can be illuminated from a complex network perspective. Highlighting the many emerging points of contact between neuroscience and network science, the book serves to introduce network theory to neuroscientists and neuroscience to those working on theoretical network models. Sporns emphasizes how networks connect levels of organization in the brain and how they link structure to function, offering an informal and nonmathematical treatment of the subject. Networks of the Brain provides a synthesis of the sciences of complex networks and the brain that will be an essential foundation for future research.


Connectome

Connectome
Author: Sebastian Seung
Publisher: HMH
Total Pages: 389
Release: 2012-02-07
Genre: Science
ISBN: 0547508174

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“Accessible, witty . . . an important new researcher, philosopher and popularizer of brain science . . . on par with cosmology’s Brian Greene and the late Carl Sagan” (The Plain Dealer). One of the Wall Street Journal’s 10 Best Nonfiction Books of the Year and a Publishers Weekly “Top Ten in Science” Title Every person is unique, but science has struggled to pinpoint where, precisely, that uniqueness resides. Our genome may determine our eye color and even aspects of our character. But our friendships, failures, and passions also shape who we are. The question is: How? Sebastian Seung is at the forefront of a revolution in neuroscience. He believes that our identity lies not in our genes, but in the connections between our brain cells—our particular wiring. Seung and a dedicated group of researchers are leading the effort to map these connections, neuron by neuron, synapse by synapse. It’s a monumental effort, but if they succeed, they will uncover the basis of personality, identity, intelligence, memory, and perhaps disorders such as autism and schizophrenia. Connectome is a mind-bending adventure story offering a daring scientific and technological vision for understanding what makes us who we are, as individuals and as a species. “This is complicated stuff, and it is a testament to Dr. Seung’s remarkable clarity of exposition that the reader is swept along with his enthusiasm, as he moves from the basics of neuroscience out to the farthest regions of the hypothetical, sketching out a spectacularly illustrated giant map of the universe of man.” —TheNew York Times “An elegant primer on what’s known about how the brain is organized and how it grows, wires its neurons, perceives its environment, modifies or repairs itself, and stores information. Seung is a clear, lively writer who chooses vivid examples.” —TheWashington Post


Active Inference

Active Inference
Author: Thomas Parr
Publisher: MIT Press
Total Pages: 313
Release: 2022-03-29
Genre: Science
ISBN: 0262362287

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The first comprehensive treatment of active inference, an integrative perspective on brain, cognition, and behavior used across multiple disciplines. Active inference is a way of understanding sentient behavior—a theory that characterizes perception, planning, and action in terms of probabilistic inference. Developed by theoretical neuroscientist Karl Friston over years of groundbreaking research, active inference provides an integrated perspective on brain, cognition, and behavior that is increasingly used across multiple disciplines including neuroscience, psychology, and philosophy. Active inference puts the action into perception. This book offers the first comprehensive treatment of active inference, covering theory, applications, and cognitive domains. Active inference is a “first principles” approach to understanding behavior and the brain, framed in terms of a single imperative to minimize free energy. The book emphasizes the implications of the free energy principle for understanding how the brain works. It first introduces active inference both conceptually and formally, contextualizing it within current theories of cognition. It then provides specific examples of computational models that use active inference to explain such cognitive phenomena as perception, attention, memory, and planning.


Explaining the Brain

Explaining the Brain
Author: Carl F. Craver
Publisher: Clarendon Press
Total Pages: 330
Release: 2007-06-07
Genre: Philosophy
ISBN: 0191538442

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What distinguishes good explanations in neuroscience from bad? Carl F. Craver constructs and defends standards for evaluating neuroscientific explanations that are grounded in a systematic view of what neuroscientific explanations are: descriptions of multilevel mechanisms. In developing this approach, he draws on a wide range of examples in the history of neuroscience (e.g. Hodgkin and Huxleys model of the action potential and LTP as a putative explanation for different kinds of memory), as well as recent philosophical work on the nature of scientific explanation. Readers in neuroscience, psychology, the philosophy of mind, and the philosophy of science will find much to provoke and stimulate them in this book.


Corticonics

Corticonics
Author: M. Abeles
Publisher: Cambridge University Press
Total Pages: 298
Release: 1991-02-22
Genre: Science
ISBN: 9780521376174

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Understanding how the brain works is probably the greatest scientific and intellectual challenge of our generation. The cerebral cortex is the instrument by which we carry the most complex mental functions. Fortunately, there exists an immense body of knowledge concerning both cortical structure and the properties of single neurons in the cortex. With the advent of the supercomputer, there has been increased interest in neural network modeling. What is needed is a new approach to an understanding of the mammalian cerebral cortex that will provide a link between the physiological description and the computer model. This book meets that need by combining anatomy, physiology, and modeling to achieve a quantitative description of cortical function. The material is presented didactically, starting with descriptive anatomy and comprehensively examining all aspects of modeling. The book gradually leads the reader from the macroscopic cortical anatomy and standard electrophysiological properties of single neurons to neural network models and synfire chains. The most modern trends in neural network modeling are explored.


In Search of Mechanisms

In Search of Mechanisms
Author: Carl F. Craver
Publisher: University of Chicago Press
Total Pages: 251
Release: 2013-10-03
Genre: Science
ISBN: 022603982X

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Neuroscientists investigate the mechanisms of spatial memory. Molecular biologists study the mechanisms of protein synthesis and the myriad mechanisms of gene regulation. Ecologists study nutrient cycling mechanisms and their devastating imbalances in estuaries such as the Chesapeake Bay. In fact, much of biology and its history involves biologists constructing, evaluating, and revising their understanding of mechanisms. With In Search of Mechanisms, Carl F. Craver and Lindley Darden offer both a descriptive and an instructional account of how biologists discover mechanisms. Drawing on examples from across the life sciences and through the centuries, Craver and Darden compile an impressive toolbox of strategies that biologists have used and will use again to reveal the mechanisms that produce, underlie, or maintain the phenomena characteristic of living things. They discuss the questions that figure in the search for mechanisms, characterizing the experimental, observational, and conceptual considerations used to answer them, all the while providing examples from the history of biology to highlight the kinds of evidence and reasoning strategies employed to assess mechanisms. At a deeper level, Craver and Darden pose a systematic view of what biology is, of how biology makes progress, of how biological discoveries are and might be made, and of why knowledge of biological mechanisms is important for the future of the human species.


Pattern Recognition and Machine Learning

Pattern Recognition and Machine Learning
Author: Christopher M. Bishop
Publisher: Springer
Total Pages: 0
Release: 2016-08-23
Genre: Computers
ISBN: 9781493938438

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This is the first textbook on pattern recognition to present the Bayesian viewpoint. The book presents approximate inference algorithms that permit fast approximate answers in situations where exact answers are not feasible. It uses graphical models to describe probability distributions when no other books apply graphical models to machine learning. No previous knowledge of pattern recognition or machine learning concepts is assumed. Familiarity with multivariate calculus and basic linear algebra is required, and some experience in the use of probabilities would be helpful though not essential as the book includes a self-contained introduction to basic probability theory.