Computational methods for biofabrication in tissue engineering and regenerative medicine - a literature review

This literature review rigorously examines the growing scientific interest in computational methods for Tissue Engineering and Regenerative Medicine biofabrication, a leading-edge area in biomedical innovation, emphasizing the need for accurate, multi-stage, and multi-component biofabrication process models. The paper presents a comprehensive bibliometric and contextual analysis, followed by a literature review, to shed light on the vast potential of computational methods in this domain. It reveals that most existing methods focus on single biofabrication process stages and components, and there is a significant gap in approaches that utilize accurate models encompassing both biological and technological aspects. This analysis underscores the indispensable role of these methods in understanding and effectively manipulating complex biological systems and the necessity for developing computational methods that span multiple stages and components. The review concludes that such comprehensive computational methods are essential for developing innovative and efficient Tissue Engineering and Regenerative Medicine biofabrication solutions, driving forward advancements in this dynamic and evolving field

Neuroengineering of Clustering Algorithms

Cluster analysis can be broadly divided into multivariate data visualization, clustering algorithms, and cluster validation. This dissertation contributes neural network-based techniques to perform all three unsupervised learning tasks. Particularly, the first paper provides a comprehensive review on adaptive resonance theory (ART) models for engineering applications and provides context for the four subsequent papers. These papers are devoted to enhancements of ART-based clustering algorithms from (a) a practical perspective by exploiting the visual assessment of cluster tendency (VAT) sorting algorithm as a preprocessor for ART offline training, thus mitigating ordering effects; and (b) an engineering perspective by designing a family of multi-criteria ART models: dual vigilance fuzzy ART and distributed dual vigilance fuzzy ART (both of which are capable of detecting complex cluster structures), merge ART (aggregates partitions and lessens ordering effects in online learning), and cluster validity index vigilance in fuzzy ART (features a robust vigilance parameter selection and alleviates ordering effects in offline learning). The sixth paper consists of enhancements to data visualization using self-organizing maps (SOMs) by depicting in the reduced dimension and topology-preserving SOM grid information-theoretic similarity measures between neighboring neurons. This visualization\u27s parameters are estimated using samples selected via a single-linkage procedure, thereby generating heatmaps that portray more homogeneous within-cluster similarities and crisper between-cluster boundaries. The seventh paper presents incremental cluster validity indices (iCVIs) realized by (a) incorporating existing formulations of online computations for clusters\u27 descriptors, or (b) modifying an existing ART-based model and incrementally updating local density counts between prototypes. Moreover, this last paper provides the first comprehensive comparison of iCVIs in the computational intelligence literature --Abstract, page iv

Projection-Based Clustering through Self-Organization and Swarm Intelligence

It covers aspects of unsupervised machine learning used for knowledge discovery in data science and introduces a data-driven approach to cluster analysis, the Databionic swarm (DBS). DBS consists of the 3D landscape visualization and clustering of data. The 3D landscape enables 3D printing of high-dimensional data structures. The clustering and number of clusters or an absence of cluster structure are verified by the 3D landscape at a glance. DBS is the first swarm-based technique that shows emergent properties while exploiting concepts of swarm intelligence, self-organization and the Nash equilibrium concept from game theory. It results in the elimination of a global objective function and the setting of parameters. By downloading the R package DBS can be applied to data drawn from diverse research fields and used even by non-professionals in the field of data mining

Projection-Based Clustering through Self-Organization and Swarm Intelligence: Combining Cluster Analysis with the Visualization of High-Dimensional Data

Cluster Analysis; Dimensionality Reduction; Swarm Intelligence; Visualization; Unsupervised Machine Learning; Data Science; Knowledge Discovery; 3D Printing; Self-Organization; Emergence; Game Theory; Advanced Analytics; High-Dimensional Data; Multivariate Data; Analysis of Structured Dat

Event-Driven Technologies for Reactive Motion Planning: Neuromorphic Stereo Vision and Robot Path Planning and Their Application on Parallel Hardware

Die Robotik wird immer mehr zu einem Schlüsselfaktor des technischen Aufschwungs. Trotz beeindruckender Fortschritte in den letzten Jahrzehnten, übertreffen Gehirne von Säugetieren in den Bereichen Sehen und Bewegungsplanung noch immer selbst die leistungsfähigsten Maschinen. Industrieroboter sind sehr schnell und präzise, aber ihre Planungsalgorithmen sind in hochdynamischen Umgebungen, wie sie für die Mensch-Roboter-Kollaboration (MRK) erforderlich sind, nicht leistungsfähig genug. Ohne schnelle und adaptive Bewegungsplanung kann sichere MRK nicht garantiert werden. Neuromorphe Technologien, einschließlich visueller Sensoren und Hardware-Chips, arbeiten asynchron und verarbeiten so raum-zeitliche Informationen sehr effizient. Insbesondere ereignisbasierte visuelle Sensoren sind konventionellen, synchronen Kameras bei vielen Anwendungen bereits überlegen. Daher haben ereignisbasierte Methoden ein großes Potenzial, schnellere und energieeffizientere Algorithmen zur Bewegungssteuerung in der MRK zu ermöglichen. In dieser Arbeit wird ein Ansatz zur flexiblen reaktiven Bewegungssteuerung eines Roboterarms vorgestellt. Dabei wird die Exterozeption durch ereignisbasiertes Stereosehen erreicht und die Pfadplanung ist in einer neuronalen Repräsentation des Konfigurationsraums implementiert. Die Multiview-3D-Rekonstruktion wird durch eine qualitative Analyse in Simulation evaluiert und auf ein Stereo-System ereignisbasierter Kameras übertragen. Zur Evaluierung der reaktiven kollisionsfreien Online-Planung wird ein Demonstrator mit einem industriellen Roboter genutzt. Dieser wird auch für eine vergleichende Studie zu sample-basierten Planern verwendet. Ergänzt wird dies durch einen Benchmark von parallelen Hardwarelösungen wozu als Testszenario Bahnplanung in der Robotik gewählt wurde. Die Ergebnisse zeigen, dass die vorgeschlagenen neuronalen Lösungen einen effektiven Weg zur Realisierung einer Robotersteuerung für dynamische Szenarien darstellen. Diese Arbeit schafft eine Grundlage für neuronale Lösungen bei adaptiven Fertigungsprozesse, auch in Zusammenarbeit mit dem Menschen, ohne Einbußen bei Geschwindigkeit und Sicherheit. Damit ebnet sie den Weg für die Integration von dem Gehirn nachempfundener Hardware und Algorithmen in die Industrierobotik und MRK

Real-time big data processing for anomaly detection : a survey

The advent of connected devices and omnipresence of Internet have paved way for intruders to attack networks, which leads to cyber-attack, financial loss, information theft in healthcare, and cyber war. Hence, network security analytics has become an important area of concern and has gained intensive attention among researchers, off late, specifically in the domain of anomaly detection in network, which is considered crucial for network security. However, preliminary investigations have revealed that the existing approaches to detect anomalies in network are not effective enough, particularly to detect them in real time. The reason for the inefficacy of current approaches is mainly due the amassment of massive volumes of data though the connected devices. Therefore, it is crucial to propose a framework that effectively handles real time big data processing and detect anomalies in networks. In this regard, this paper attempts to address the issue of detecting anomalies in real time. Respectively, this paper has surveyed the state-of-the-art real-time big data processing technologies related to anomaly detection and the vital characteristics of associated machine learning algorithms. This paper begins with the explanation of essential contexts and taxonomy of real-time big data processing, anomalous detection, and machine learning algorithms, followed by the review of big data processing technologies. Finally, the identified research challenges of real-time big data processing in anomaly detection are discussed. © 2018 Elsevier Lt

Development of an unsupervised remote sensing methodology of detect surface leakage from terrestrial CO2 storage sites

Imperial Users onl

Sustaining Glasgow's Urban Networks: the Link Communities of Complex Urban Systems

As cities grow in population size and became more crowded (UN DESA, 2018), the main future challenges around the world will remain to be accommodating the growing urban population while drastically reducing environmental pressure. Contemporary urban agglomerations (large or small) constantly impose burden on the natural environment by conveying ecosystem services to close and distant places, through coupled human nature [infrastructure] systems (CHANS). Tobler’s first law in geography (1970) that states that “everything is related to everything else, but near things are more related than distant things” is now challenged by globalization. When this law was first established, the hypothesis referred to geological processes (Campbell and Shin, 2012, p.194) that were predominantly observed in pre-globalized economy, where freight was costly and mainly localized (Zhang et al., 2018). With the recent advances and modernisation made in transport technologies, most of them in the sea and air transportation (Zhang et al., 2018) and the growth of cities in population, natural resources and bi-products now travel great distances to infiltrate cities (Neuman, 2006) and satisfy human demands. Technical modernisation and the global hyperconnectivity of human interactions and trading, in the last thirty years alone resulted with staggering 94 per cent growth of resource extraction and consumption (Giljum et al., 2015). Local geographies (Kennedy, Cuddihy and Engel-Yan, 2007) will remain affected by global urbanisation (Giljum et al., 2015), and as a corollary, the operational inefficiencies of their local infrastructure networks, will contribute even more to the issues of environmental unsustainability on a global scale. Another challenge for future city-regions is the equity of public infrastructure services and policy creation that promote the same (Neuman and Hull, 2009). Public infrastructure services refer to services provisioned by networked infrastructure, which are subject to both public obligation and market rules. Therefore, their accessibility to all citizens needs to be safeguarded. The disparity of growth between networked infrastructure and socio-economic dynamics affects the sustainable assimilation and equal access to infrastructure in various districts in cities, rendering it as a privilege. Yet, the empirical evidence of whether the place of residence acts as a disadvantage to public service access and use, remains rather scarce (Clifton et al., 2016). The European Union recognized (EU, 2011) the issue of equality in accessibility (i.e. equity) critical for territorial cohesion and sustainable development across districts, municipalities and regions with diverse economic performance. Territorial cohesion, formally incorporated into the Treaty of Lisbon, now steers the policy frameworks of territorial development within the Union. Subsequently, the European Union developed a policy paradigm guided by equal access (Clifton et al., 2016) to public infrastructure services, considering their accessibility as instrumental aspect in achieving territorial cohesion across and within its member states. A corollary of increasing the equity to public infrastructure services among growing global population is the potential increase in environmental pressure they can impose, especially if this pressure is not decentralised and surges at unsustainable rate (Neuman, 2006). This danger varies across countries and continents, and is directly linked to the increase of urban population due to; [1] improved quality of life and increased life expectancy and/or [2] urban in-migration of rural population and/or [3] global political or economic immigration. These three rising urban trends demand new approaches to reimagine planning and design practices that foster infrastructure equity, whilst delivering environmental justice. Therefore, this research explores in depth the nature of growth of networked infrastructure (Graham and Marvin, 2001) as a complex system and its disparity from the socio-economic growth (or decline) of Glasgow and Clyde Valley city-region. The results of this research gain new understanding in the potential of using emerging tools from network science for developing optimization strategy that supports more cecentralized, efficient, fair and (as an outcome) sustainable enlargement of urban infrastructure, to accommodate new and empower current residents of the city. Applying the novel link clustering community detection algorithm (Ahn et al., 2010) in this thesis I have presented the potential for better understanding the complexity behind the urban system of networked infrastructure, through discovering their overlapping communities. As I will show in the literature review (Chapter 2), the long standing tradition of centralised planning practice relying on zoning and infiltrating infrastructure, left us with urban settlements which are failing to respond to the environmental pressure and the socio-economic inequalities. Building on the myriad of knowledge from planners, geographers, sociologists and computer scientists, I developed a new element (i.e. link communities) within the theory of urban studies that defines cities as complex systems. After, I applied a method borrowed from the study of complex networks to unpack their basic elements. Knowing the link (i.e. functional, or overlapping) communities of metropolitan Glasgow enabled me to evaluate the current level of communities interconnectedness and reveal the gaps as well as the potentials for improving the studied system’s performance. The complex urban system in metropolitan Glasgow was represented by its networked infrastructure, which essentially was a system of distinct sub-systems, one of them mapped by a physical and the other one by a social graph. The conceptual framework for this methodological approach was formalised from the extensively reviewed literature and methods utilising network science tools to detect community structure in complex networks. The literature review led to constructing a hypothesis claiming that the efficiency of the physical network’s topology is achieved through optimizing the number of nodes with high betweenness centrality, while the efficiency of the logical network’s topology is achieved by optimizing the number of links with high edge betweenness. The conclusion from the literature review presented through the discourse on to the primal problem in 7.4.1, led to modelling the two network topologies as separate graphs. The bipartite graph of their primal syntax was mirrored to be symmetrical and converted to dual. From the dual syntax I measured the complete accessibility (i.e. betweenness centrality) of the entire area and not only of the streets. Betweenness centrality of a node measures the number of shortest paths that pass through the node connecting pairs of nodes. The betweenness centrality is same as the integration of streets in space syntax, where the streets are analysed in their dual syntax representation. Street integration is the number of intersections the street shares with other streets and a high value means high accessibility. Edges with high betweenness are shared between strong communities. Based on the theoretical underpinnings of the network’s modularity and community structure analysed herein, it can be concluded that a complex network that is both robust and efficient (and in urban planning terminology ‘sustainable’) is consisted of numerous strong communities connected with each other by optimal number of links with high edge betweenness. To get this insight, the study detected the edge cut-set and vertex cut-set of the complex network. The outcome was a statistical model developed in the open source software R (Ihaka and Gentleman, 1996). The model empirical detects the network’s overlapping communities, determining the current sustainability of its physical and logical topologies. Initially, an assumption was that the number of communities within the infrastructure (physical) network layer were different from the one in the logical. They were detected using the Louvain method that performs graph partitioning on the hierarchical streets structure. Further, the number of communities in the relational network layer (i.e. accessibility to locations) was detected based on the OD accessibility matrix established from the functional dependency between the household locations and predefined points of interest. The communities from the graph of the ‘relational layer' were discovered with the single-link hierarchical clustering algorithm. The number of communities observed in the physical and the logical topologies of the eight shires significantly deviated

Turku Centre for Computer Science – Annual Report 2013

Due to a major reform of organization and responsibilities of TUCS, its role, activities, and even structures have been under reconsideration in 2013. The traditional pillar of collaboration at TUCS, doctoral training, was reorganized due to changes at both universities according to the renewed national system for doctoral education. Computer Science and Engineering and Information Systems Science are now accompanied by Mathematics and Statistics in newly established doctoral programs at both University of Turku and &Aring;bo Akademi University. Moreover, both universities granted sufficient resources to their respective programmes for doctoral training in these fields, so that joint activities at TUCS can continue. The outcome of this reorganization has the potential of proving out to be a success in terms of scientific profile as well as the quality and quantity of scientific and educational results.&nbsp; International activities that have been characteristic to TUCS since its inception continue strong. TUCS&rsquo; participation in European collaboration through EIT ICT Labs Master&rsquo;s and Doctoral School is now more active than ever. The new double degree programs at MSc and PhD level between University of Turku and Fudan University in Shaghai, P.R.China were succesfully set up and are&nbsp; now running for their first year. The joint students will add to the already international athmosphere of the ICT House.&nbsp; The four new thematic reseach programmes set up acccording to the decision by the TUCS Board have now established themselves, and a number of events and other activities saw the light in 2013. The TUCS Distinguished Lecture Series managed to gather a large audience with its several prominent speakers. The development of these and other research centre activities continue, and&nbsp; new practices and structures will be initiated to support the tradition of close academic collaboration.&nbsp; The TUCS&rsquo; slogan Where Academic Tradition Meets the Exciting Future has proven true throughout these changes. Despite of the dark clouds on the national and European economic sky, science and higher education in the field have managed to retain all the key ingredients for success. Indeed, the future of ICT and Mathematics in Turku seems exciting.</p