466 research outputs found

    Advances and Applications of DSmT for Information Fusion. Collected Works, Volume 5

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    This fifth volume on Advances and Applications of DSmT for Information Fusion collects theoretical and applied contributions of researchers working in different fields of applications and in mathematics, and is available in open-access. The collected contributions of this volume have either been published or presented after disseminating the fourth volume in 2015 in international conferences, seminars, workshops and journals, or they are new. The contributions of each part of this volume are chronologically ordered. First Part of this book presents some theoretical advances on DSmT, dealing mainly with modified Proportional Conflict Redistribution Rules (PCR) of combination with degree of intersection, coarsening techniques, interval calculus for PCR thanks to set inversion via interval analysis (SIVIA), rough set classifiers, canonical decomposition of dichotomous belief functions, fast PCR fusion, fast inter-criteria analysis with PCR, and improved PCR5 and PCR6 rules preserving the (quasi-)neutrality of (quasi-)vacuous belief assignment in the fusion of sources of evidence with their Matlab codes. Because more applications of DSmT have emerged in the past years since the apparition of the fourth book of DSmT in 2015, the second part of this volume is about selected applications of DSmT mainly in building change detection, object recognition, quality of data association in tracking, perception in robotics, risk assessment for torrent protection and multi-criteria decision-making, multi-modal image fusion, coarsening techniques, recommender system, levee characterization and assessment, human heading perception, trust assessment, robotics, biometrics, failure detection, GPS systems, inter-criteria analysis, group decision, human activity recognition, storm prediction, data association for autonomous vehicles, identification of maritime vessels, fusion of support vector machines (SVM), Silx-Furtif RUST code library for information fusion including PCR rules, and network for ship classification. Finally, the third part presents interesting contributions related to belief functions in general published or presented along the years since 2015. These contributions are related with decision-making under uncertainty, belief approximations, probability transformations, new distances between belief functions, non-classical multi-criteria decision-making problems with belief functions, generalization of Bayes theorem, image processing, data association, entropy and cross-entropy measures, fuzzy evidence numbers, negator of belief mass, human activity recognition, information fusion for breast cancer therapy, imbalanced data classification, and hybrid techniques mixing deep learning with belief functions as well

    Discovering Causal Relations and Equations from Data

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    Physics is a field of science that has traditionally used the scientific method to answer questions about why natural phenomena occur and to make testable models that explain the phenomena. Discovering equations, laws and principles that are invariant, robust and causal explanations of the world has been fundamental in physical sciences throughout the centuries. Discoveries emerge from observing the world and, when possible, performing interventional studies in the system under study. With the advent of big data and the use of data-driven methods, causal and equation discovery fields have grown and made progress in computer science, physics, statistics, philosophy, and many applied fields. All these domains are intertwined and can be used to discover causal relations, physical laws, and equations from observational data. This paper reviews the concepts, methods, and relevant works on causal and equation discovery in the broad field of Physics and outlines the most important challenges and promising future lines of research. We also provide a taxonomy for observational causal and equation discovery, point out connections, and showcase a complete set of case studies in Earth and climate sciences, fluid dynamics and mechanics, and the neurosciences. This review demonstrates that discovering fundamental laws and causal relations by observing natural phenomena is being revolutionised with the efficient exploitation of observational data, modern machine learning algorithms and the interaction with domain knowledge. Exciting times are ahead with many challenges and opportunities to improve our understanding of complex systems.Comment: 137 page

    Complexity Science in Human Change

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    This reprint encompasses fourteen contributions that offer avenues towards a better understanding of complex systems in human behavior. The phenomena studied here are generally pattern formation processes that originate in social interaction and psychotherapy. Several accounts are also given of the coordination in body movements and in physiological, neuronal and linguistic processes. A common denominator of such pattern formation is that complexity and entropy of the respective systems become reduced spontaneously, which is the hallmark of self-organization. The various methodological approaches of how to model such processes are presented in some detail. Results from the various methods are systematically compared and discussed. Among these approaches are algorithms for the quantification of synchrony by cross-correlational statistics, surrogate control procedures, recurrence mapping and network models.This volume offers an informative and sophisticated resource for scholars of human change, and as well for students at advanced levels, from graduate to post-doctoral. The reprint is multidisciplinary in nature, binding together the fields of medicine, psychology, physics, and neuroscience

    COVID-19 Booster Vaccine Acceptance in Ethnic Minority Individuals in the United Kingdom: a mixed-methods study using Protection Motivation Theory

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    Background: Uptake of the COVID-19 booster vaccine among ethnic minority individuals has been lower than in the general population. However, there is little research examining the psychosocial factors that contribute to COVID-19 booster vaccine hesitancy in this population.Aim: Our study aimed to determine which factors predicted COVID-19 vaccination intention in minority ethnic individuals in Middlesbrough, using Protection Motivation Theory (PMT) and COVID-19 conspiracy beliefs, in addition to demographic variables.Method: We used a mixed-methods approach. Quantitative data were collected using an online survey. Qualitative data were collected using semi-structured interviews. 64 minority ethnic individuals (33 females, 31 males; mage = 31.06, SD = 8.36) completed the survey assessing PMT constructs, COVID-19conspiracy beliefs and demographic factors. 42.2% had received the booster vaccine, 57.6% had not. 16 survey respondents were interviewed online to gain further insight into factors affecting booster vaccineacceptance.Results: Multiple regression analysis showed that perceived susceptibility to COVID-19 was a significant predictor of booster vaccination intention, with higher perceived susceptibility being associated with higher intention to get the booster. Additionally, COVID-19 conspiracy beliefs significantly predictedintention to get the booster vaccine, with higher conspiracy beliefs being associated with lower intention to get the booster dose. Thematic analysis of the interview data showed that barriers to COVID-19 booster vaccination included time constraints and a perceived lack of practical support in the event ofexperiencing side effects. Furthermore, there was a lack of confidence in the vaccine, with individuals seeing it as lacking sufficient research. Participants also spoke of medical mistrust due to historical events involving medical experimentation on minority ethnic individuals.Conclusion: PMT and conspiracy beliefs predict COVID-19 booster vaccination in minority ethnic individuals. To help increase vaccine uptake, community leaders need to be involved in addressing people’s concerns, misassumptions, and lack of confidence in COVID-19 vaccination

    New insights on the multidimensionality of fatigue and on its relationship with cognitive impairments in multiple sclerosis

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    Multiple Sclerosis (MS) is an inflammatory disease of the central nervous system (CNS), and it represents the most common cause of irreversible impairment in young adults, affecting about 2.5 million individuals worldwide. In MS, acute attacks of inflammation, leading to demyelination and axonal loss, determine the accumulation of disabilities, varying in number, nature, and severity. Indeed, motor, sensory, cognitive, and behavioral symptoms may manifest at different times during the disease's variable clinical course. Fatigue is a complex and multifaceted phenomenon and one of the most prevalent and disabling symptoms of MS, affecting 75%–90% of patients. Despite its prevalence, MS- related fatigue is still poorly understood. The absence of a well-validated definition and of clear insights into its pathophysiological causes makes fatigue a hybrid symptom, approached within the context of different disciplines, each with their own methods and tools. As a result, the scientific literature abounds with irreconcilable data, leaving fatigue in a dark shadow zone, at the expense of MS patients still lacking adequate therapies and strategies of management. The main topic of this thesis relates to the multidimensional nature of fatigue, to its variability, and its effects on attentional processes, most commonly affected in MS patients. Specifically, studies presented in the current thesis address four research issues: (i) are physical and mental fatigue two distinct constructs? (ii) how do physical and mental fatigue vary within a short (within a day) and long (within a year) period? (iii) how do induced physical and mental fatigue impact the attentional functions of alerting, orienting, and conflict resolution in MS? The main results of the studies are reported: a) A clear distinction between physical and mental fatigue has been psychometrically documented in MS patients. b) MS patients reported experiencing more overall fatigue than Controls. c) A gradual increase in overall fatigue from the morning to the evening was reported by MS participants. d) Across experiments physical fatigue was significantly more pronounced in MS patients as compared to Controls. e) Both MS patients and Controls reported having experienced more overall fatigue in the past (one year ago) than in the present (the last 24 hours). f) MS patients were slower as compared to Controls in performing attentional tasks; however, inconclusive results have emerged regarding the effects of physical and mental fatigue on attentional processes. g) Sleep quality and depression were both associated with fatigue across the experiments. The relationship between self-efficacy, general cognitive functioning, functional deterioration, and physical and mental fatigue is fragmented, thus preventing a clear conclusion

    An information-theoretic approach to understanding the neural coding of relevant tactile features

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    Objective: Traditional theories in neuroscience state that tactile afferents present in the glabrous skin of the human hand encode tactile information following a submodality segregation strategy, meaning that each modality (eg. motion, vibration, shape, ... ) is encoded by a different afferent class. Modern theories suggest a submodality convergence instead, in which different afferent classes work together to capture information about the environment through tactile sense. Typically, studies involve electrophysiological recordings of tens of afferents. At the same time, the human hand is filled with around 17.000 afferents. In this thesis, we want to tackle the theoretical gap this poses. Specifically, we aim to address whether the peripheral nervous system relies on population coding to represent tactile information and whether such population coding enables us to disambiguate submodality convergence against the classical segregation. Approach: Understanding the encoding and flow of information in the nervous system is one of the main challenges of modern neuroscience. Neural signals are highly variable and may be non-linear. Moreover, there exist several candidate codes compatible with sensory and behavioral events. For example, they can rely on single cells or populations and also on rate or timing precision. Information-theoretic methods can capture non-linearities while being model independent, statistically robust, and mathematically well-grounded, becoming an ideal candidate to design pipelines for analyzing neural data. Despite information-theoretic methods being powerful for our objective, the vast majority of neural signals we can acquire from living systems makes analyses highly problem-specific. This is so because of the rich variety of biological processes that are involved (continuous, discrete, electrical, chemical, optical, ...). Main results: The first step towards solving the aforementioned challenges was to have a solid methodology we could trust and rely on. Consequently, the first deliverable from this thesis is a toolbox that gathers classical and state-of-the-art information-theoretic approaches and blends them with advanced machine learning tools to process and analyze neural data. Moreover, this toolbox also provides specific guidance on calcium imaging and electrophysiology analyses, encompassing both simulated and experimental data. We then designed an information-theoretic pipeline to analyze large-scale simulations of the tactile afferents that overcomes the current limitations of experimental studies in the field of touch and the peripheral nervous system. We dissected the importance of population coding for the different afferent classes, given their spatiotemporal dynamics. We also demonstrated that different afferent classes encode information simultaneously about very simple features, and that combining classes increases information levels, adding support to the submodality convergence theory. Significance: Fundamental knowledge about touch is essential both to design human-like robots exhibiting naturalistic exploration behavior and prostheses that can properly integrate and provide their user with relevant and useful information to interact with their environment. Demonstrating that the peripheral nervous system relies on heterogeneous population coding can change the designing paradigm of artificial systems, both in terms of which sensors to choose and which algorithms to use, especially in neuromorphic implementations

    Discovering causal relations and equations from data

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    Physics is a field of science that has traditionally used the scientific method to answer questions about why natural phenomena occur and to make testable models that explain the phenomena. Discovering equations, laws, and principles that are invariant, robust, and causal has been fundamental in physical sciences throughout the centuries. Discoveries emerge from observing the world and, when possible, performing interventions on the system under study. With the advent of big data and data-driven methods, the fields of causal and equation discovery have developed and accelerated progress in computer science, physics, statistics, philosophy, and many applied fields. This paper reviews the concepts, methods, and relevant works on causal and equation discovery in the broad field of physics and outlines the most important challenges and promising future lines of research. We also provide a taxonomy for data-driven causal and equation discovery, point out connections, and showcase comprehensive case studies in Earth and climate sciences, fluid dynamics and mechanics, and the neurosciences. This review demonstrates that discovering fundamental laws and causal relations by observing natural phenomena is revolutionised with the efficient exploitation of observational data and simulations, modern machine learning algorithms and the combination with domain knowledge. Exciting times are ahead with many challenges and opportunities to improve our understanding of complex systems

    Higher-order interactions in single-cell gene expression: towards a cybergenetic semantics of cell state

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    Finding and understanding patterns in gene expression guides our understanding of living organisms, their development, and diseases, but is a challenging and high-dimensional problem as there are many molecules involved. One way to learn about the structure of a gene regulatory network is by studying the interdependencies among its constituents in transcriptomic data sets. These interdependencies could be arbitrarily complex, but almost all current models of gene regulation contain pairwise interactions only, despite experimental evidence existing for higher-order regulation that cannot be decomposed into pairwise mechanisms. I set out to capture these higher-order dependencies in single-cell RNA-seq data using two different approaches. First, I fitted maximum entropy (or Ising) models to expression data by training restricted Boltzmann machines (RBMs). On simulated data, RBMs faithfully reproduced both pairwise and third-order interactions. I then trained RBMs on 37 genes from a scRNA-seq data set of 70k astrocytes from an embryonic mouse. While pairwise and third-order interactions were revealed, the estimates contained a strong omitted variable bias, and there was no statistically sound and tractable way to quantify the uncertainty in the estimates. As a result I next adopted a model-free approach. Estimating model-free interactions (MFIs) in single-cell gene expression data required a quasi-causal graph of conditional dependencies among the genes, which I inferred with an MCMC graph-optimisation algorithm on an initial estimate found by the Peter-Clark algorithm. As the estimates are model-free, MFIs can be interpreted either as mechanistic relationships between the genes, or as substructures in the cell population. On simulated data, MFIs revealed synergy and higher-order mechanisms in various logical and causal dynamics more accurately than any correlation- or information-based quantities. I then estimated MFIs among 1,000 genes, at up to seventh-order, in 20k neurons and 20k astrocytes from two different mouse brain scRNA-seq data sets: one developmental, and one adolescent. I found strong evidence for up to fifth-order interactions, and the MFIs mostly disambiguated direct from indirect regulation by preferentially coupling causally connected genes, whereas correlations persisted across causal chains. Validating the predicted interactions against the Pathway Commons database, gene ontology annotations, and semantic similarity, I found that pairwise MFIs contained different but a similar amount of mechanistic information relative to networks based on correlation. Furthermore, third-order interactions provided evidence of combinatorial regulation by transcription factors and immediate early genes. I then switched focus from mechanism to population structure. Each significant MFI can be assigned a set of single cells that most influence its value. Hierarchical clustering of the MFIs by cell assignment revealed substructures in the cell population corresponding to diverse cell states. This offered a new, purely data-driven view on cell states because the inferred states are not required to localise in gene expression space. Across the four data sets, I found 69 significant and biologically interpretable cell states, where only 9 could be obtained by standard approaches. I identified immature neurons among developing astrocytes and radial glial cells, D1 and D2 medium spiny neurons, D1 MSN subtypes, and cell-cycle related states present across four data sets. I further found evidence for states defined by genes associated to neuropeptide signalling, neuronal activity, myelin metabolism, and genomic imprinting. MFIs thus provide a new, statistically sound method to detect substructure in single-cell gene expression data, identifying cell types, subtypes, or states that can be delocalised in gene expression space and whose hierarchical structure provides a new view on the semantics of cell state. The estimation of the quasi-causal graph, the MFIs, and inference of the associated states is implemented as a publicly available Nextflow pipeline called Stator

    Deep learning applied to computational mechanics: A comprehensive review, state of the art, and the classics

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    Three recent breakthroughs due to AI in arts and science serve as motivation: An award winning digital image, protein folding, fast matrix multiplication. Many recent developments in artificial neural networks, particularly deep learning (DL), applied and relevant to computational mechanics (solid, fluids, finite-element technology) are reviewed in detail. Both hybrid and pure machine learning (ML) methods are discussed. Hybrid methods combine traditional PDE discretizations with ML methods either (1) to help model complex nonlinear constitutive relations, (2) to nonlinearly reduce the model order for efficient simulation (turbulence), or (3) to accelerate the simulation by predicting certain components in the traditional integration methods. Here, methods (1) and (2) relied on Long-Short-Term Memory (LSTM) architecture, with method (3) relying on convolutional neural networks. Pure ML methods to solve (nonlinear) PDEs are represented by Physics-Informed Neural network (PINN) methods, which could be combined with attention mechanism to address discontinuous solutions. Both LSTM and attention architectures, together with modern and generalized classic optimizers to include stochasticity for DL networks, are extensively reviewed. Kernel machines, including Gaussian processes, are provided to sufficient depth for more advanced works such as shallow networks with infinite width. Not only addressing experts, readers are assumed familiar with computational mechanics, but not with DL, whose concepts and applications are built up from the basics, aiming at bringing first-time learners quickly to the forefront of research. History and limitations of AI are recounted and discussed, with particular attention at pointing out misstatements or misconceptions of the classics, even in well-known references. Positioning and pointing control of a large-deformable beam is given as an example.Comment: 275 pages, 158 figures. Appeared online on 2023.03.01 at CMES-Computer Modeling in Engineering & Science

    Operational research:methods and applications

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    Throughout its history, Operational Research has evolved to include a variety of methods, models and algorithms that have been applied to a diverse and wide range of contexts. This encyclopedic article consists of two main sections: methods and applications. The first aims to summarise the up-to-date knowledge and provide an overview of the state-of-the-art methods and key developments in the various subdomains of the field. The second offers a wide-ranging list of areas where Operational Research has been applied. The article is meant to be read in a nonlinear fashion. It should be used as a point of reference or first-port-of-call for a diverse pool of readers: academics, researchers, students, and practitioners. The entries within the methods and applications sections are presented in alphabetical order
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