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Notes on Contributors ix
Introduction xxi
Part I Models of Brain Disorders 1
1 A Computational Model of Dyslexics' Perceptual Difficulties as Impaired Inference of Sound Statistics 3Sagi Jaffe-Dax, Ofri Raviv, Yonatan Loewenstein, and Merav Ahissar
2 Computational Approximations to Intellectual Disability in Down Syndrome 15Ángel E. Tovar, Ahmed A. Moustafa, and Natalia Arias-Trejo
3 Computational Psychiatry 29Robb B. Rutledge and Rick A. Adams
4 Computational Models of Post-traumatic Stress Disorder (PTSD) 43Milen L. Radell, Catherine E. Myers, Jony Sheynin, and Ahmed A. Moustafa
5 Reward Processing in Depression 57
The Computational ApproachChong Chen and Taiki Takahashi
6 Neurocomputational Models of Schizophrenia 73Ahmed A. Moustafa, B³äej Misiak, and Dorota Frydecka
7 Oscillatory Dynamics of Brain Microcircuits 85
Modeling Perspectives and Neurological Disease ConsiderationsFrances K. Skinner and Alexandra Pierri Chatzikalymniou
8 Computational Models of Pharmacological and Immunological Treatment in Alzheimer's Disease 99Vassilis Cutsuridis and Ahmed A. Moustafa
9 Modeling Deep Brain Stimulation for Parkinson's Disease 109
Volume Conductor, Network, and Mean-Field ModelsMadeleine M. Lowery
10 The Development of Medications for Parkinson's Disease Using Computational Modeling 125Mubashir Hassan and Ahmed A. Moustafa
11 Multiscale Computer Modeling of Epilepsy 139M. Sanjay, Samuel A. Neymotin, Srinivasa B. Krothapalli, and William W. Lytton
Part II Neural Models of Behavioral Processes 151
12 Simple Models of Sensory Information Processing 153Danke Zhang, Malte J. Rasch, and Si Wu
13 Motion Detection 171 An Artificial Recurrent Neural Network ApproachJeroen Joukes and Bart Krekelberg
14 Computation in the Olfactory System 185Christiane Linster
15 Computational Models of Olfaction in Fruit Flies 199Ankur Gupta, Faramarz Faghihi, and Ahmed A. Moustafa
16 Multisensory Integration 215
How the Brain Combines Information Across the SensesRyan L. Miller and Benjamin A. Rowland
17 Computational Models in Social Neuroscience 229Jin Hyun Cheong, Eshin Jolly, Sunhae Sul, and Luke J. Chang
18 Sleep is For the Brain 245
Contemporary Computational Approaches in the Study of Sleep and Memory and a Novel "Temporal Scaffolding" HypothesisItamar Lerner
19 Models of Neural Homeostasis 257Hazem Toutounji
Part III Models of Brain Regions and Neurotransmitters 271
20 Striatum 273
Structure, Dynamics, and FunctionJyotika Bahuguna and Arvind Kumar
21 Amygdala Models 285Vinay Guntu, Feng Feng, Adel Alturki, Ajay Nair, Pranit Samarth, and Satish S. Nair
22 Cerebellum and its Disorders 303
A Review of Perspectives from Computational NeuroscienceShyam Diwakar and Ahmed A. Moustafa
23 Models of Dynamical Synapses and Cortical Development 321Radwa Khalil, Marie Z. Moftah, Marc Landry, and Ahmed A. Moustafa
24 Computational Models of Memory Formation in
Healthy and Diseased Microcircuits of the Hippocampus 333Vassilis Cutsuridis
25 Episodic Memory and the Hippocampus 345Naoyuki Sato
26 How Do We Navigate Our Way to Places? 357
Developing a New Model to Study Place Field Formation in Hippocampus Including the Role of AstrocytesFariba Bahrami and Shiva Farashahi
27 Models of Neuromodulation 373Michael C. Avery and Jeffrey L. Krichmar
28 Neural Circuit Models of the Serotonergic System 389
From Microcircuits to CognitionPragathi Priyadharsini Balasubramani, V. Srinivasa Chakravarthy, KongFatt Wong-Lin, Da-Hui Wang, Jeremiah Y. Cohen, Kae Nakamura, and Ahmed A. Moustafa
Part IV Neural Modeling Approaches 401
29 A Behavioral Framework for Information Representation in the Brain 403Frédéric Alexandre
30 Probing Human Brain Function with Artificial Neural Networks 413Umut Güçlü and Marcel van Gerven
31 Large-scale Computational Models of Ongoing Brain Activity 425Tristan T. Nakagawa, Mohit H. Adhikari, and Gustavo Deco
32 Optimizing Electrical Stimulation for Closed-loop Control of Neural Ensembles 439
A Review of Algorithms and ApplicationsSeif Eldawlatly
33 Complex Probabilistic Inference 453
From Cognition to Neural ComputationSamuel J. Gershman and Jeffrey M. Beck
34 A Flexible and Efficient Hierarchical Bayesian Approach to the Exploration of Individual Differences in Cognitive-model-based Neuroscience 467Alexander Ly, Udo Boehm, Andrew Heathcote, Brandon M. Turner, Birte Forstmann, Maarten Marsman, and Dora Matzke
35 Information Theory, Memory, Prediction, and Timing in Associative Learning 481Jason T. Wilkes and C. R. Gallistel
36 The Utility of Phase Models in Studying Neural Synchronization 493Youngmin Park, Stewart A. Heitmann, and G. Bard Ermentrout
37 Phase Oscillator Network Models of Brain Dynamics 505Carlo R. Laing
38 The Neuronal Signal and Its Models 519Igor Palmieri, Luiz H. A. Monteiro, and Maria D. Miranda
39 History Dependent Neuronal Activity Modeled with Fractional Order Dynamics 531Seth H. Weinberg and Fidel Santamaria
Index 549
Rick A. Adams is an academic clinical lecturer in psychiatry at University College London (UCL). He studied medicine at Cambridge University and did his clinical training and PhD at University College London, the latter under Professor Karl Friston. His research focuses on using techniques from computational psychiatry to understand schizophrenia and psychosis, and he co-organizes a computational psychiatry course at UCL.
Mohit H. Adhikari is a postdoctoral researcher at the Center for Brain and Cognition at the University of Pompeu Fabra. His current research focus is computational modeling of resting state functional data, particularly from human stroke patients.
Merav Ahissar is a professor of psychology, she holds the Joseph H. and Belle R. Braun Chair in Psychology, and is a member of the Edmond and Lily Safra Center for Brain Sciences at the Hebrew University. She studies theories of perceptual learning, and developed in collaboration with Professor Shaul Hochstein, the Reverse Hierarchy Theory of perception and perceptual learning, initially for vision and later for audition. She also studies abnormal learning processes among populations with learning disabilities, with an emphasis on reading disability. She developed the Anchoring Hypothesis Theory, which proposes that dyslexics use sound statistics inefficiently in forming auditory simple and linguistic precepts. She uses behavioral, computational, event-related potential (ERP), and imaging tools.
F. Frédéric Alexandre is a director of research at Inria, the French Institute for Research in Computer Science and Automation . He is the head of the Mnemosyne group, working in computational neuroscience in the Bordeaux Neurocampus, at the Institute of Neurodegenerative Diseases. His research interests are concerned with the emergence of intelligent behavior, by means of computational neuroscience, machine learning, artificial intelligence, and cognitive modeling, in tight loop with neuroscience and the medical domain.
Adel Alturki is a PhD student in electrical engineering at the University of Missouri-Columbia. He obtained dual Master's degrees in electrical engineering and applied mathematics from Western Michigan University in 2011. He is presently on leave from his position as instructor at Yanbu Industrial College, Saudi Arabia. His research interests include computational neuroscience, artificial intelligence, and control systems.
Natalia Arias-Trejo is a professor in the Faculty of Psychology, National Autonomous University of Mexico (UNAM). Her fields of research include psycholinguistics, early lexical networks, and intellectual disability. Key publications are Abreu-Mendoza, R. A. & Arias-Trejo, N. (2015). Numerical and Area Comparison Abilities in Down Syndrome. Research in Developmental Disabilities; Arias-Trejo, N., Cantrell, L. M., Smith, L., & Alva-Canto, E. A. (2014). Early Comprehension of the Spanish Plural. Journal of Child Language; Arias-Trejo, N. & Plunkett, K. (2013). What's in a Link: Associative and Semantic Priming Effects in the Infant Lexicon. Cognition.
Michael C. Avery received a BSc in mathematics and biochemistry in 2007 from Virginia Tech, a PhD in cognitive neuroscience from the University of California, Irvine in 2013, and is currently a postdoctoral researcher in the Systems Neurobiology Laboratories at the Salk Institute. He is interested in understanding the circuit-level computations that give rise to cognitive functions and how their failures may lead to mental disorders.
Fariba Bahrami received her PhD in biomedical engineering from the University of Tehran. She was awarded a scholarship for her PhD at the Technical University of Munich, Germany. Since 2013 she has been an associate professor at the University of Tehran. Her main fields of interest are biological system modeling, computational neuroscience, human motor control, and rehabilitation. In 2012, she was awarded the Institute of Electrical and Electronics Engineers (IEEE) Women-In-Engineering Award for her tremendous contribution to biomedical engineering in Iran.
Jyotika Bahuguna is a researcher at Forschungszentrum Jülich, Germany. She received her doctoral degree in computational neuroscience from Bernstein Center Freiburg and KTH Royal Institute of Technology, Stockholm, Sweden, in 2016. She in interested in the structure-function relationship in neuronal networks, the role of spike-time dependent plasticity on network function, and neural coding. She is currently developing large-scale mathematical models to investigate basal ganglia activity dynamics in healthy and pathological states, especially Parkinson's disease.
Jeffrey M. Beck received a BSc in mathematics from Harvey Mudd College and a PhD in applied mathematics from Northwestern University. He was a postdoctoral fellow in the Department of Brain and Cognitive Sciences at the University of Rochester and also at the Gatsby Computational Neuroscience Unit at UCL. He is now an assistant professor of neurobiology and bio-medical engineering at Duke University.
Udo Boehm is a PhD candidate in mathematical psychology. He received his bachelor's degree in psychology in 2009 and his Master's degree in behavioral and cognitive neurosciences (cognitive modeling) in 2012. His main research interests are mathematical models of decision making and Bayesian statistics.
Luke J. Chang is currently an assistant professor in psychological and brain sciences at Dartmouth College. He completed a BA at Reed College, an MA at the New School for Social Research, a PhD in clinical psychology at the University of Arizona, a predoctoral clinical internship in behavioral medicine at the University of California-Los Angeles (UCLA), and a postdoc at the University of Colorado Boulder. His research program is focused on understanding the neurobiological and computational mechanisms underlying emotion and social interactions.
Chong Chen, MD, PhD (medicine, Hokkaido University), was formerly at the Department of Psychiatry, Hokkaido University Graduate School of Medicine, and is now a research scientist at Riken Brain Science Institute. He studies the neurobiological basis of stress and depression and is particularly interested in computational psychiatry.
Jin Hyun Cheong graduated from Princeton University with a BA in psychology and certificates in neuroscience and finance. Postgraduation, he worked as a research assistant at the Princeton Neuroscience Institute and investigated the computational and neural foundations of optimal human decision making. Currently, he is a graduate student at Dartmouth College and is interested in applying computational, behavioral, psychophysiological, and neuroimaging methods to investigate how emotions and social cognition impact economic choices and behavior.
Jeremiah Y. Cohen is an assistant professor in the Solomon H. Snyder Department of Neuroscience and the Brain Science Institute at the Johns Hopkins University School of Medicine. His laboratory studies neurophysiology underlying reward and decision making. He was trained as a postdoctoral fellow at Harvard University and received his PhD in neuroscience at Vanderbilt University.
Vassilis Cutsuridis is an accomplished computational neuroscientist and cognitive systems researcher at the Foundation for Research and Technology Hellas (FORTH). His research aims to decipher how brain circuits and patterns of neural activity give rise to mental experience and how such an understanding can help design brain-mimetic algorithms for complex data analysis and systems with autonomous behavior. He has published over 70 peer reviewed papers and four edited books.
Gustavo Deco is Institució Catalana de Recerca i Estudis Avançats (ICREA) research professor and full professor at the Universitat Pompeu Fabra, where he heads the Computational Neuroscience Group and directs the Center for Brain and Cognition. Recognized as a world leader in computational neuroscience, he has pioneered work in dynamical modeling of human brain activity. He is a European Reaerch Council Advanced Grantee and core member of the Human Brain Project. He has published four books, over 210 international journal papers, and 30 book chapters.
Shyam Diwakar is an assistant professor and lab director of the Computational Neuroscience Laboratory, School of Biotechnology and a faculty fellow at the Center for International Programs at Amrita University, India. He is a co-investigator of a National virtual labs initiative and other projects funded by the Department of Science and Technology (DST) and the Department of Biotechnology (DBT), Government of India. He was awarded the Sir Visvesvaraya Young Faculty Research Fellowship in April 2016 by DeitY, Government of India, and the Nvidia Innovation award in 2015.
Seif Eldawlatly is an assistant professor at the Computer and Systems Engineering Department, Faculty of Engineering, Ain Shams University, Cairo, Egypt. He received his PhD in electrical and computer engineering from Michigan State University in 2011 and his MSc and BSc degrees in computer and systems engineering from Ain Shams University in 2006 and 2003, respectively. His research focuses on developing machine learning and signal processing algorithms for brain-machine interfaces and visual prostheses.
G. Bard Ermentrout received a BA and MA in mathematics from the Johns Hopkins University, and a PhD in biophysics and theoretical biology from the University of Chicago in...
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