528 research outputs found

    Design of new algorithms for gene network reconstruction applied to in silico modeling of biomedical data

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    Programa de Doctorado en Biotecnología, Ingeniería y Tecnología QuímicaLínea de Investigación: Ingeniería, Ciencia de Datos y BioinformáticaClave Programa: DBICódigo Línea: 111The root causes of disease are still poorly understood. The success of current therapies is limited because persistent diseases are frequently treated based on their symptoms rather than the underlying cause of the disease. Therefore, biomedical research is experiencing a technology-driven shift to data-driven holistic approaches to better characterize the molecular mechanisms causing disease. Using omics data as an input, emerging disciplines like network biology attempt to model the relationships between biomolecules. To this effect, gene co- expression networks arise as a promising tool for deciphering the relationships between genes in large transcriptomic datasets. However, because of their low specificity and high false positive rate, they demonstrate a limited capacity to retrieve the disrupted mechanisms that lead to disease onset, progression, and maintenance. Within the context of statistical modeling, we dove deeper into the reconstruction of gene co-expression networks with the specific goal of discovering disease-specific features directly from expression data. Using ensemble techniques, which combine the results of various metrics, we were able to more precisely capture biologically significant relationships between genes. We were able to find de novo potential disease-specific features with the help of prior biological knowledge and the development of new network inference techniques. Through our different approaches, we analyzed large gene sets across multiple samples and used gene expression as a surrogate marker for the inherent biological processes, reconstructing robust gene co-expression networks that are simple to explore. By mining disease-specific gene co-expression networks we come up with a useful framework for identifying new omics-phenotype associations from conditional expression datasets.In this sense, understanding diseases from the perspective of biological network perturbations will improve personalized medicine, impacting rational biomarker discovery, patient stratification and drug design, and ultimately leading to more targeted therapies.Universidad Pablo de Olavide de Sevilla. Departamento de Deporte e Informátic

    Next Generation Business Ecosystems: Engineering Decentralized Markets, Self-Sovereign Identities and Tokenization

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    Digital transformation research increasingly shifts from studying information systems within organizations towards adopting an ecosystem perspective, where multiple actors co-create value. While digital platforms have become a ubiquitous phenomenon in consumer-facing industries, organizations remain cautious about fully embracing the ecosystem concept and sharing data with external partners. Concerns about the market power of platform orchestrators and ongoing discussions on privacy, individual empowerment, and digital sovereignty further complicate the widespread adoption of business ecosystems, particularly in the European Union. In this context, technological innovations in Web3, including blockchain and other distributed ledger technologies, have emerged as potential catalysts for disrupting centralized gatekeepers and enabling a strategic shift towards user-centric, privacy-oriented next-generation business ecosystems. However, existing research efforts focus on decentralizing interactions through distributed network topologies and open protocols lack theoretical convergence, resulting in a fragmented and complex landscape that inadequately addresses the challenges organizations face when transitioning to an ecosystem strategy that harnesses the potential of disintermediation. To address these gaps and successfully engineer next-generation business ecosystems, a comprehensive approach is needed that encompasses the technical design, economic models, and socio-technical dynamics. This dissertation aims to contribute to this endeavor by exploring the implications of Web3 technologies on digital innovation and transformation paths. Drawing on a combination of qualitative and quantitative research, it makes three overarching contributions: First, a conceptual perspective on \u27tokenization\u27 in markets clarifies its ambiguity and provides a unified understanding of the role in ecosystems. This perspective includes frameworks on: (a) technological; (b) economic; and (c) governance aspects of tokenization. Second, a design perspective on \u27decentralized marketplaces\u27 highlights the need for an integrated understanding of micro-structures, business structures, and IT infrastructures in blockchain-enabled marketplaces. This perspective includes: (a) an explorative literature review on design factors; (b) case studies and insights from practitioners to develop requirements and design principles; and (c) a design science project with an interface design prototype of blockchain-enabled marketplaces. Third, an economic perspective on \u27self-sovereign identities\u27 (SSI) as micro-structural elements of decentralized markets. This perspective includes: (a) value creation mechanisms and business aspects of strategic alliances governing SSI ecosystems; (b) business model characteristics adopted by organizations leveraging SSI; and (c) business model archetypes and a framework for SSI ecosystem engineering efforts. The dissertation concludes by discussing limitations as well as outlining potential avenues for future research. These include, amongst others, exploring the challenges of ecosystem bootstrapping in the absence of intermediaries, examining the make-or-join decision in ecosystem emergence, addressing the multidimensional complexity of Web3-enabled ecosystems, investigating incentive mechanisms for inter-organizational collaboration, understanding the role of trust in decentralized environments, and exploring varying degrees of decentralization with potential transition pathways

    Artificial Collective Intelligence Engineering: a Survey of Concepts and Perspectives

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    Collectiveness is an important property of many systems--both natural and artificial. By exploiting a large number of individuals, it is often possible to produce effects that go far beyond the capabilities of the smartest individuals, or even to produce intelligent collective behaviour out of not-so-intelligent individuals. Indeed, collective intelligence, namely the capability of a group to act collectively in a seemingly intelligent way, is increasingly often a design goal of engineered computational systems--motivated by recent techno-scientific trends like the Internet of Things, swarm robotics, and crowd computing, just to name a few. For several years, the collective intelligence observed in natural and artificial systems has served as a source of inspiration for engineering ideas, models, and mechanisms. Today, artificial and computational collective intelligence are recognised research topics, spanning various techniques, kinds of target systems, and application domains. However, there is still a lot of fragmentation in the research panorama of the topic within computer science, and the verticality of most communities and contributions makes it difficult to extract the core underlying ideas and frames of reference. The challenge is to identify, place in a common structure, and ultimately connect the different areas and methods addressing intelligent collectives. To address this gap, this paper considers a set of broad scoping questions providing a map of collective intelligence research, mostly by the point of view of computer scientists and engineers. Accordingly, it covers preliminary notions, fundamental concepts, and the main research perspectives, identifying opportunities and challenges for researchers on artificial and computational collective intelligence engineering.Comment: This is the author's final version of the article, accepted for publication in the Artificial Life journal. Data: 34 pages, 2 figure

    Anpassen verteilter eingebetteter Anwendungen im laufenden Betrieb

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    The availability of third-party apps is among the key success factors for software ecosystems: The users benefit from more features and innovation speed, while third-party solution vendors can leverage the platform to create successful offerings. However, this requires a certain decoupling of engineering activities of the different parties not achieved for distributed control systems, yet. While late and dynamic integration of third-party components would be required, resulting control systems must provide high reliability regarding real-time requirements, which leads to integration complexity. Closing this gap would particularly contribute to the vision of software-defined manufacturing, where an ecosystem of modern IT-based control system components could lead to faster innovations due to their higher abstraction and availability of various frameworks. Therefore, this thesis addresses the research question: How we can use modern IT technologies and enable independent evolution and easy third-party integration of software components in distributed control systems, where deterministic end-to-end reactivity is required, and especially, how can we apply distributed changes to such systems consistently and reactively during operation? This thesis describes the challenges and related approaches in detail and points out that existing approaches do not fully address our research question. To tackle this gap, a formal specification of a runtime platform concept is presented in conjunction with a model-based engineering approach. The engineering approach decouples the engineering steps of component definition, integration, and deployment. The runtime platform supports this approach by isolating the components, while still offering predictable end-to-end real-time behavior. Independent evolution of software components is supported through a concept for synchronous reconfiguration during full operation, i.e., dynamic orchestration of components. Time-critical state transfer is supported, too, and can lead to bounded quality degradation, at most. The reconfiguration planning is supported by analysis concepts, including simulation of a formally specified system and reconfiguration, and analyzing potential quality degradation with the evolving dataflow graph (EDFG) method. A platform-specific realization of the concepts, the real-time container architecture, is described as a reference implementation. The model and the prototype are evaluated regarding their feasibility and applicability of the concepts by two case studies. The first case study is a minimalistic distributed control system used in different setups with different component variants and reconfiguration plans to compare the model and the prototype and to gather runtime statistics. The second case study is a smart factory showcase system with more challenging application components and interface technologies. The conclusion is that the concepts are feasible and applicable, even though the concepts and the prototype still need to be worked on in future -- for example, to reach shorter cycle times.Eine große Auswahl von Drittanbieter-Lösungen ist einer der Schlüsselfaktoren für Software Ecosystems: Nutzer profitieren vom breiten Angebot und schnellen Innovationen, während Drittanbieter über die Plattform erfolgreiche Lösungen anbieten können. Das jedoch setzt eine gewisse Entkopplung von Entwicklungsschritten der Beteiligten voraus, welche für verteilte Steuerungssysteme noch nicht erreicht wurde. Während Drittanbieter-Komponenten möglichst spät -- sogar Laufzeit -- integriert werden müssten, müssen Steuerungssysteme jedoch eine hohe Zuverlässigkeit gegenüber Echtzeitanforderungen aufweisen, was zu Integrationskomplexität führt. Dies zu lösen würde insbesondere zur Vision von Software-definierter Produktion beitragen, da ein Ecosystem für moderne IT-basierte Steuerungskomponenten wegen deren höherem Abstraktionsgrad und der Vielzahl verfügbarer Frameworks zu schnellerer Innovation führen würde. Daher behandelt diese Dissertation folgende Forschungsfrage: Wie können wir moderne IT-Technologien verwenden und unabhängige Entwicklung und einfache Integration von Software-Komponenten in verteilten Steuerungssystemen ermöglichen, wo Ende-zu-Ende-Echtzeitverhalten gefordert ist, und wie können wir insbesondere verteilte Änderungen an solchen Systemen konsistent und im Vollbetrieb vornehmen? Diese Dissertation beschreibt Herausforderungen und verwandte Ansätze im Detail und zeigt auf, dass existierende Ansätze diese Frage nicht vollständig behandeln. Um diese Lücke zu schließen, beschreiben wir eine formale Spezifikation einer Laufzeit-Plattform und einen zugehörigen Modell-basierten Engineering-Ansatz. Dieser Ansatz entkoppelt die Design-Schritte der Entwicklung, Integration und des Deployments von Komponenten. Die Laufzeit-Plattform unterstützt den Ansatz durch Isolation von Komponenten und zugleich Zeit-deterministischem Ende-zu-Ende-Verhalten. Unabhängige Entwicklung und Integration werden durch Konzepte für synchrone Rekonfiguration im Vollbetrieb unterstützt, also durch dynamische Orchestrierung. Dies beinhaltet auch Zeit-kritische Zustands-Transfers mit höchstens begrenzter Qualitätsminderung, wenn überhaupt. Rekonfigurationsplanung wird durch Analysekonzepte unterstützt, einschließlich der Simulation formal spezifizierter Systeme und Rekonfigurationen und der Analyse der etwaigen Qualitätsminderung mit dem Evolving Dataflow Graph (EDFG). Die Real-Time Container Architecture wird als Referenzimplementierung und Evaluationsplattform beschrieben. Zwei Fallstudien untersuchen Machbarkeit und Nützlichkeit der Konzepte. Die erste verwendet verschiedene Varianten und Rekonfigurationen eines minimalistischen verteilten Steuerungssystems, um Modell und Prototyp zu vergleichen sowie Laufzeitstatistiken zu erheben. Die zweite Fallstudie ist ein Smart-Factory-Demonstrator, welcher herausforderndere Applikationskomponenten und Schnittstellentechnologien verwendet. Die Konzepte sind den Studien nach machbar und nützlich, auch wenn sowohl die Konzepte als auch der Prototyp noch weitere Arbeit benötigen -- zum Beispiel, um kürzere Zyklen zu erreichen

    DEFINING A CYBER OPERATIONS PERFORMANCE FRAMEWORK VIA COMPUTATIONAL MODELING

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    Cyber operations are influenced by a wide range of environmental characteristics, strategic policies, organizational procedures, complex networks, and the individuals who attack and defend these cyber battlegrounds. While no two cyber operations are identical, leveraging the power of computational modeling will enable decision-makers to understand and evaluate the effect of these influences prior to their impact on mission success. Given the complexity of these influences, this research proposes an agent-based modeling framework that will result in an operational performance dashboard for user analysis. To account for cyber team behavioral characteristics, this research includes the development and validation of the Cyber Operations Self-Efficacy Scales (COSES). The underlying statistics, algorithms, research instruments, and equations to support the overall framework are provided. This research represents the most comprehensive cyber operations agent-based performance analysis tools published to date

    Identification and characterization of N-degron pathways

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    Development of traceability solution for furniture components

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    Mestrado de dupla diplomação com a UTFPR - Universidade Tecnológica Federal do ParanáIn the contemporary context, characterized by intensified global competition and the constant evolution of the globalization landscape, it becomes imperative for industries, including Small and Medium Enterprises (SMEs), to undertake efforts to enhance their operational processes, often through digital technological adaptation. The present study falls within the scope of the project named “Wood Work 4.0,” which aims to infuse innovation into the wood furniture manufacturing industry through process optimization and the adoption of digital technologies. This project received funding from the European Union Development Fund, in collaboration with the North 2020 Regional Program, and was carried out at the Carpintaria Mofreita company, located in Macedo de Cavaleiros, Portugal. In this regard, this study introduces a software architecture that supports the traceability of projects in the wood furniture industry and simultaneously employs a system to identify and manage material leftovers, aiming for more efficient waste management. For the development of this software architecture, an approach that integrates the Fiware platform, specialized in systems for the Internet of Things (IoT), with an Application Programming Interface (API) specifically created to manage information about users, projects, and associated media files, was adopted. The material leftovers identification system employs image processing techniques to extract geometric characteristics of the materials. Additionally, these data are integrated into the company’s database. In this way, it was possible to develop an architecture that allows not only the capturing of project information but also its effective management. In the case of material leftovers identification, the system was able to establish, with a satisfactory degree of accuracy, the dimensions of the materials, enabling the insertion of these data into the company’s database for resource management and optimization.No contexto contemporâneo, marcado por uma competição global intensificada e pela constante evolução do cenário de globalização, torna-se imperativo para as indústrias, incluindo as Pequenas e Médias Empresas (PMEs), empreender esforços para aprimorar seus processos operacionais, frequentemente pela via da adaptação tecnológica digital. O presente estudo insere-se dentro do escopo do projeto denominado “Wood Work 4.0”, cujo propósito é infundir inovação na indústria de fabricação de móveis de madeira por meio da otimização de processos e da adoção de tecnologias digitais. Este projeto obteve financiamento do Fundo de Desenvolvimento da União Europeia, em colaboração com o programa Regional do Norte 2020 e foi realizado na empresa Carpintaria Mofreita, localizada em Macedo de Cavaleiros, Portugal. Nesse sentido, este estudo introduz uma arquitetura de software que oferece suporte à rastreabilidade de projetos na indústria de móveis de madeira, e simultaneamente emprega um sistema para identificar e gerenciar sobras de material, objetivando uma gestão de resíduos mais eficiente. Para o desenvolvimento dessa arquitetura de software, adotou-se uma abordagem que integra a plataforma Fiware, especializada em sistemas para a Internet das Coisas (IoT), com uma Interface de Programação de Aplicações (API) criada especificamente para gerenciar informações de usuários, projetos, e arquivos de mídia associados. O sistema de identificação de sobras de material emprega técnicas de processamento de imagem para extrair características geométricas dos materiais. Adicionalmente, esses dados são integrados ao banco de dados da empresa. Desta forma, foi possível desenvolver uma arquitetura que permite não só capturar informações de projetos, mas também gerenciá-las de forma eficaz. No caso da identificação de sobras de material, o sistema foi capaz de estabelecer, com um grau de precisão satisfatório, as dimensões dos materiais, possibilitando a inserção desses dados no banco de dados da empresa para gestão e otimização do uso de recursos

    Cyber-Human Systems, Space Technologies, and Threats

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    CYBER-HUMAN SYSTEMS, SPACE TECHNOLOGIES, AND THREATS is our eighth textbook in a series covering the world of UASs / CUAS/ UUVs / SPACE. Other textbooks in our series are Space Systems Emerging Technologies and Operations; Drone Delivery of CBNRECy – DEW Weapons: Emerging Threats of Mini-Weapons of Mass Destruction and Disruption (WMDD); Disruptive Technologies with applications in Airline, Marine, Defense Industries; Unmanned Vehicle Systems & Operations On Air, Sea, Land; Counter Unmanned Aircraft Systems Technologies and Operations; Unmanned Aircraft Systems in the Cyber Domain: Protecting USA’s Advanced Air Assets, 2nd edition; and Unmanned Aircraft Systems (UAS) in the Cyber Domain Protecting USA’s Advanced Air Assets, 1st edition. Our previous seven titles have received considerable global recognition in the field. (Nichols & Carter, 2022) (Nichols, et al., 2021) (Nichols R. K., et al., 2020) (Nichols R. , et al., 2020) (Nichols R. , et al., 2019) (Nichols R. K., 2018) (Nichols R. K., et al., 2022)https://newprairiepress.org/ebooks/1052/thumbnail.jp

    WiFi-Based Human Activity Recognition Using Attention-Based BiLSTM

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    Recently, significant efforts have been made to explore human activity recognition (HAR) techniques that use information gathered by existing indoor wireless infrastructures through WiFi signals without demanding the monitored subject to carry a dedicated device. The key intuition is that different activities introduce different multi-paths in WiFi signals and generate different patterns in the time series of channel state information (CSI). In this paper, we propose and evaluate a full pipeline for a CSI-based human activity recognition framework for 12 activities in three different spatial environments using two deep learning models: ABiLSTM and CNN-ABiLSTM. Evaluation experiments have demonstrated that the proposed models outperform state-of-the-art models. Also, the experiments show that the proposed models can be applied to other environments with different configurations, albeit with some caveats. The proposed ABiLSTM model achieves an overall accuracy of 94.03%, 91.96%, and 92.59% across the 3 target environments. While the proposed CNN-ABiLSTM model reaches an accuracy of 98.54%, 94.25% and 95.09% across those same environments
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