Structure and topology of transcriptional regulatory networks and their applications in bio-inspired networking

Biological networks carry out vital functions necessary for sustenance despite environmental adversities. Transcriptional Regulatory Network (TRN) is one such biological network that is formed due to the interaction between proteins, called Transcription Factors (TFs), and segments of DNA, called genes. TRNs are known to exhibit functional robustness in the face of perturbation or mutation: a property that is proven to be a result of its underlying network topology. In this thesis, we first propose a three-tier topological characterization of TRN to analyze the interplay between the significant graph-theoretic properties of TRNs such as scale-free out-degree distribution, low graph density, small world property and the abundance of subgraphs called motifs. Specifically, we pinpoint the role of a certain three-node motif, called Feed Forward Loop (FFL) motif in topological robustness as well as information spread in TRNs. With the understanding of the TRN topology, we explore its potential use in design of fault-tolerant communication topologies. To this end, we first propose an edge rewiring mechanism that remedies the vulnerability of TRNs to the failure of well-connected nodes, called hubs, while preserving its other significant graph-theoretic properties. We apply the rewired TRN topologies in the design of wireless sensor networks that are less vulnerable to targeted node failure. Similarly, we apply the TRN topology to address the issues of robustness and energy-efficiency in the following networking paradigms: robust yet energy-efficient delay tolerant network for post disaster scenarios, energy-efficient data-collection framework for smart city applications and a data transfer framework deployed over a fog computing platform for collaborative sensing --Abstract, page iii

Middleware Technologies for Cloud of Things - a survey

The next wave of communication and applications rely on the new services provided by Internet of Things which is becoming an important aspect in human and machines future. The IoT services are a key solution for providing smart environments in homes, buildings and cities. In the era of a massive number of connected things and objects with a high grow rate, several challenges have been raised such as management, aggregation and storage for big produced data. In order to tackle some of these issues, cloud computing emerged to IoT as Cloud of Things (CoT) which provides virtually unlimited cloud services to enhance the large scale IoT platforms. There are several factors to be considered in design and implementation of a CoT platform. One of the most important and challenging problems is the heterogeneity of different objects. This problem can be addressed by deploying suitable "Middleware". Middleware sits between things and applications that make a reliable platform for communication among things with different interfaces, operating systems, and architectures. The main aim of this paper is to study the middleware technologies for CoT. Toward this end, we first present the main features and characteristics of middlewares. Next we study different architecture styles and service domains. Then we presents several middlewares that are suitable for CoT based platforms and lastly a list of current challenges and issues in design of CoT based middlewares is discussed.Comment: http://www.sciencedirect.com/science/article/pii/S2352864817301268, Digital Communications and Networks, Elsevier (2017

Middleware Technologies for Cloud of Things - a survey

The next wave of communication and applications rely on the new services provided by Internet of Things which is becoming an important aspect in human and machines future. The IoT services are a key solution for providing smart environments in homes, buildings and cities. In the era of a massive number of connected things and objects with a high grow rate, several challenges have been raised such as management, aggregation and storage for big produced data. In order to tackle some of these issues, cloud computing emerged to IoT as Cloud of Things (CoT) which provides virtually unlimited cloud services to enhance the large scale IoT platforms. There are several factors to be considered in design and implementation of a CoT platform. One of the most important and challenging problems is the heterogeneity of different objects. This problem can be addressed by deploying suitable "Middleware". Middleware sits between things and applications that make a reliable platform for communication among things with different interfaces, operating systems, and architectures. The main aim of this paper is to study the middleware technologies for CoT. Toward this end, we first present the main features and characteristics of middlewares. Next we study different architecture styles and service domains. Then we presents several middlewares that are suitable for CoT based platforms and lastly a list of current challenges and issues in design of CoT based middlewares is discussed.Comment: http://www.sciencedirect.com/science/article/pii/S2352864817301268, Digital Communications and Networks, Elsevier (2017

Trustworthiness Mechanisms for Long-Distance Networks in Internet of Things

Aquesta tesi té com a objectiu aconseguir un intercanvi de dades fiable en un entorn hostil millorant-ne la confiabilitat mitjançant el disseny d'un model complet que tingui en compte les diferents capes de confiabilitat i mitjançant la implementació de les contramesures associades al model. La tesi se centra en el cas d'ús del projecte SHETLAND-NET, amb l'objectiu de desplegar una arquitectura d'Internet de les coses (IoT) híbrida amb comunicacions LoRa i d'ona ionosfèrica d'incidència gairebé vertical (NVIS) per oferir un servei de telemetria per al monitoratge del “permafrost” a l'Antàrtida. Per complir els objectius de la tesi, en primer lloc, es fa una revisió de l'estat de l'art en confiabilitat per proposar una definició i l'abast del terme de confiança. Partint d'aquí, es dissenya un model de confiabilitat de quatre capes, on cada capa es caracteritza pel seu abast, mètrica per a la quantificació de la confiabilitat, contramesures per a la millora de la confiabilitat i les interdependències amb les altres capes. Aquest model permet el mesurament i l'avaluació de la confiabilitat del cas d'ús a l'Antàrtida. Donades les condicions hostils i les limitacions de la tecnologia utilitzada en aquest cas d’ús, es valida el model i s’avalua el servei de telemetria a través de simulacions en Riverbed Modeler. Per obtenir valors anticipats de la confiabilitat esperada, l'arquitectura proposada es modela per avaluar els resultats amb diferents configuracions previ al seu desplegament en proves de camp. L'arquitectura proposada passa per tres principals iteracions de millora de la confiabilitat. A la primera iteració, s'explora l'ús de mecanismes de consens i gestió de la confiança social per aprofitar la redundància de sensors. En la segona iteració, s’avalua l’ús de protocols de transport moderns per al cas d’ús antàrtic. L’última iteració d’aquesta tesi avalua l’ús d’una arquitectura de xarxa tolerant al retard (DTN) utilitzant el Bundle Protocol (BP) per millorar la confiabilitat del sistema. Finalment, es presenta una prova de concepte (PoC) amb maquinari real que es va desplegar a la campanya antàrtica 2021-2022, descrivint les proves de camp funcionals realitzades a l'Antàrtida i Catalunya.Esta tesis tiene como objetivo lograr un intercambio de datos confiable en un entorno hostil mejorando su confiabilidad mediante el diseño de un modelo completo que tenga en cuenta las diferentes capas de confiabilidad y mediante la implementación de las contramedidas asociadas al modelo. La tesis se centra en el caso de uso del proyecto SHETLAND-NET, con el objetivo de desplegar una arquitectura de Internet de las cosas (IoT) híbrida con comunicaciones LoRa y de onda ionosférica de incidencia casi vertical (NVIS) para ofrecer un servicio de telemetría para el monitoreo del “permafrost” en la Antártida. Para cumplir con los objetivos de la tesis, en primer lugar, se realiza una revisión del estado del arte en confiabilidad para proponer una definición y alcance del término confiabilidad. Partiendo de aquí, se diseña un modelo de confiabilidad de cuatro capas, donde cada capa se caracteriza por su alcance, métrica para la cuantificación de la confiabilidad, contramedidas para la mejora de la confiabilidad y las interdependencias con las otras capas. Este modelo permite la medición y evaluación de la confiabilidad del caso de uso en la Antártida. Dadas las condiciones hostiles y las limitaciones de la tecnología utilizada en este caso de uso, se valida el modelo y se evalúa el servicio de telemetría a través de simulaciones en Riverbed Modeler. Para obtener valores anticipados de la confiabilidad esperada, la arquitectura propuesta es modelada para evaluar los resultados con diferentes configuraciones previo a su despliegue en pruebas de campo. La arquitectura propuesta pasa por tres iteraciones principales de mejora de la confiabilidad. En la primera iteración, se explora el uso de mecanismos de consenso y gestión de la confianza social para aprovechar la redundancia de sensores. En la segunda iteración, se evalúa el uso de protocolos de transporte modernos para el caso de uso antártico. La última iteración de esta tesis evalúa el uso de una arquitectura de red tolerante al retardo (DTN) utilizando el Bundle Protocol (BP) para mejorar la confiabilidad del sistema. Finalmente, se presenta una prueba de concepto (PoC) con hardware real que se desplegó en la campaña antártica 2021-2022, describiendo las pruebas de campo funcionales realizadas en la Antártida y Cataluña.This thesis aims at achieving reliable data exchange over a harsh environment by improving its trustworthiness through the design of a complete model that takes into account the different layers of trustworthiness and through the implementation of the model’s associated countermeasures. The thesis focuses on the use case of the SHETLAND-NET project, aiming to deploy a hybrid Internet of Things (IoT) architecture with LoRa and Near Vertical Incidence Skywave (NVIS) communications to offer a telemetry service for permafrost monitoring in Antarctica. To accomplish the thesis objectives, first, a review of the state of the art in trustworthiness is carried out to propose a definition and scope of the trustworthiness term. From these, a four-layer trustworthiness model is designed, with each layer characterized by its scope, metric for trustworthiness accountability, countermeasures for trustworthiness improvement, and the interdependencies with the other layers. This model enables trustworthiness accountability and assessment of the Antarctic use case. Given the harsh conditions and the limitations of the use technology in this use case, the model is validated and the telemetry service is evaluated through simulations in Riverbed Modeler. To obtain anticipated values of the expected trustworthiness, the proposal has been modeled to evaluate the performance with different configurations prior to its deployment in the field. The proposed architecture goes through three major iterations of trustworthiness improvement. In the first iteration, using social trust management and consensus mechanisms is explored to take advantage of sensor redundancy. In the second iteration, the use of modern transport protocols is evaluated for the Antarctic use case. The final iteration of this thesis assesses using a Delay Tolerant Network (DTN) architecture using the Bundle Protocol (BP) to improve the system’s trustworthiness. Finally, a Proof of Concept (PoC) with real hardware that was deployed in the 2021-2022 Antarctic campaign is presented, describing the functional tests performed in Antarctica and Catalonia

A Novel Enhanced Quantum PSO for Optimal Network Configuration in Heterogeneous Industrial IoT

A novel enhanced quantum particle swarm optimization algorithm for IIoT deployments is proposed. It provides enhanced connectivity, reduced energy consumption, and optimized delay. We consider heterogeneous scenarios of network topologies for optimal path configuration by exploring and exploiting the hunts. It uses multiple inputs from heterogeneous IIoT into quantum and bio-inspired optimization techniques. The differential evolution operator and crossover operations are used for information interchange among the nodes to avoid trapping into local minima. The different topology scenarios are simulated to study the impact of $p$ -degrees of connectivity concerning objective functions’ evaluation and compared with existing techniques. The results demonstrate that our algorithm consumes a minimum of 30.3% lesser energy. Furthermore, it offers improved searching precision and convergence swiftness in the possible search space for $p$ -disjoint paths and reduces the delay by a minimum of 26.7%. Our algorithm also improves the throughput by a minimum of 29.87% since the quantum swarm inclines to generate additional diverse paths from multiple source nodes to the gateway