Using machine learning to support better and intelligent visualisation for genomic data

Massive amounts of genomic data are created for the advent of Next Generation Sequencing technologies. Great technological advances in methods of characterising the human diseases, including genetic and environmental factors, make it a great opportunity to understand the diseases and to find new diagnoses and treatments. Translating medical data becomes more and more rich and challenging. Visualisation can greatly aid the processing and integration of complex data. Genomic data visual analytics is rapidly evolving alongside with advances in high-throughput technologies such as Artificial Intelligence (AI), and Virtual Reality (VR). Personalised medicine requires new genomic visualisation tools, which can efficiently extract knowledge from the genomic data effectively and speed up expert decisions about the best treatment of an individual patient’s needs. However, meaningful visual analysis of such large genomic data remains a serious challenge. Visualising these complex genomic data requires not only simply plotting of data but should also lead to better decisions. Machine learning has the ability to make prediction and aid in decision-making. Machine learning and visualisation are both effective ways to deal with big data, but they focus on different purposes. Machine learning applies statistical learning techniques to automatically identify patterns in data to make highly accurate prediction, while visualisation can leverage the human perceptual system to interpret and uncover hidden patterns in big data. Clinicians, experts and researchers intend to use both visualisation and machine learning to analyse their complex genomic data, but it is a serious challenge for them to understand and trust machine learning models in the serious medical industry. The main goal of this thesis is to study the feasibility of intelligent and interactive visualisation which combined with machine learning algorithms for medical data analysis. A prototype has also been developed to illustrate the concept that visualising genomics data from childhood cancers in meaningful and dynamic ways could lead to better decisions. Machine learning algorithms are used and illustrated during visualising the cancer genomic data in order to provide highly accurate predictions. This research could open a new and exciting path to discovery for disease diagnostics and therapies

Do You Know What I Know?:Situational Awareness of Co-located Teams in Multidisplay Environments

Modern collaborative environments often provide an overwhelming amount of visual information on multiple displays. In complex project settings, the amount of visual information on multiple displays, and the multitude of personal and shared interaction devices in these environments can reduce the awareness of team members on ongoing activities, the understanding of shared visualisations, and the awareness of who is in control of shared artifacts. Research reported in this thesis addresses the situational awareness (SA) support of co-located teams working on team projects in multidisplay environments. Situational awareness becomes even more critical when the content of multiple displays changes rapidly, and when these provide large amounts of information. This work aims at getting insights into design and evaluation of shared display visualisations that afford situational awareness and group decision making. This thesis reports the results of three empirical user studies in three different domains: life science experimentation, decision making in brainstorming teams, and agile software development. The first and the second user studies evaluate the impact of the Highlighting-on-Demand and the Chain-of-Thoughts SA on the group decision-making and awareness. The third user study presents the design and evaluation of a shared awareness display for software teams. Providing supportive visualisations on a shared large display, we aimed at reducing the distraction from the primary task, enhancing the group decision-making process and the perceived task performance

State of the art of audio- and video based solutions for AAL

Working Group 3. Audio- and Video-based AAL ApplicationsIt is a matter of fact that Europe is facing more and more crucial challenges regarding health and social care due to the demographic change and the current economic context. The recent COVID-19 pandemic has stressed this situation even further, thus highlighting the need for taking action. Active and Assisted Living (AAL) technologies come as a viable approach to help facing these challenges, thanks to the high potential they have in enabling remote care and support. Broadly speaking, AAL can be referred to as the use of innovative and advanced Information and Communication Technologies to create supportive, inclusive and empowering applications and environments that enable older, impaired or frail people to live independently and stay active longer in society. AAL capitalizes on the growing pervasiveness and effectiveness of sensing and computing facilities to supply the persons in need with smart assistance, by responding to their necessities of autonomy, independence, comfort, security and safety. The application scenarios addressed by AAL are complex, due to the inherent heterogeneity of the end-user population, their living arrangements, and their physical conditions or impairment. Despite aiming at diverse goals, AAL systems should share some common characteristics. They are designed to provide support in daily life in an invisible, unobtrusive and user-friendly manner. Moreover, they are conceived to be intelligent, to be able to learn and adapt to the requirements and requests of the assisted people, and to synchronise with their specific needs. Nevertheless, to ensure the uptake of AAL in society, potential users must be willing to use AAL applications and to integrate them in their daily environments and lives. In this respect, video- and audio-based AAL applications have several advantages, in terms of unobtrusiveness and information richness. Indeed, cameras and microphones are far less obtrusive with respect to the hindrance other wearable sensors may cause to one’s activities. In addition, a single camera placed in a room can record most of the activities performed in the room, thus replacing many other non-visual sensors. Currently, video-based applications are effective in recognising and monitoring the activities, the movements, and the overall conditions of the assisted individuals as well as to assess their vital parameters (e.g., heart rate, respiratory rate). Similarly, audio sensors have the potential to become one of the most important modalities for interaction with AAL systems, as they can have a large range of sensing, do not require physical presence at a particular location and are physically intangible. Moreover, relevant information about individuals’ activities and health status can derive from processing audio signals (e.g., speech recordings). Nevertheless, as the other side of the coin, cameras and microphones are often perceived as the most intrusive technologies from the viewpoint of the privacy of the monitored individuals. This is due to the richness of the information these technologies convey and the intimate setting where they may be deployed. Solutions able to ensure privacy preservation by context and by design, as well as to ensure high legal and ethical standards are in high demand. After the review of the current state of play and the discussion in GoodBrother, we may claim that the first solutions in this direction are starting to appear in the literature. A multidisciplinary 4 debate among experts and stakeholders is paving the way towards AAL ensuring ergonomics, usability, acceptance and privacy preservation. The DIANA, PAAL, and VisuAAL projects are examples of this fresh approach. This report provides the reader with a review of the most recent advances in audio- and video-based monitoring technologies for AAL. It has been drafted as a collective effort of WG3 to supply an introduction to AAL, its evolution over time and its main functional and technological underpinnings. In this respect, the report contributes to the field with the outline of a new generation of ethical-aware AAL technologies and a proposal for a novel comprehensive taxonomy of AAL systems and applications. Moreover, the report allows non-technical readers to gather an overview of the main components of an AAL system and how these function and interact with the end-users. The report illustrates the state of the art of the most successful AAL applications and functions based on audio and video data, namely (i) lifelogging and self-monitoring, (ii) remote monitoring of vital signs, (iii) emotional state recognition, (iv) food intake monitoring, activity and behaviour recognition, (v) activity and personal assistance, (vi) gesture recognition, (vii) fall detection and prevention, (viii) mobility assessment and frailty recognition, and (ix) cognitive and motor rehabilitation. For these application scenarios, the report illustrates the state of play in terms of scientific advances, available products and research project. The open challenges are also highlighted. The report ends with an overview of the challenges, the hindrances and the opportunities posed by the uptake in real world settings of AAL technologies. In this respect, the report illustrates the current procedural and technological approaches to cope with acceptability, usability and trust in the AAL technology, by surveying strategies and approaches to co-design, to privacy preservation in video and audio data, to transparency and explainability in data processing, and to data transmission and communication. User acceptance and ethical considerations are also debated. Finally, the potentials coming from the silver economy are overviewed.publishedVersio

An interdisciplinary concept for human-centered explainable artificial intelligence - Investigating the impact of explainable AI on end-users

Since the 1950s, Artificial Intelligence (AI) applications have captivated people. However, this fascination has always been accompanied by disillusionment about the limitations of this technology. Today, machine learning methods such as Deep Neural Networks (DNN) are successfully used in various tasks. However, these methods also have limitations: Their complexity makes their decisions no longer comprehensible to humans - they are black-boxes. The research branch of Explainable AI (XAI) has addressed this problem by investigating how to make AI decisions comprehensible. This desire is not new. In the 1970s, developers of intrinsic explainable AI approaches, so-called white-boxes (e.g., rule-based systems), were dealing with AI explanations. Nowadays, with the increased use of AI systems in all areas of life, the design of comprehensible systems has become increasingly important. Developing such systems is part of Human-Centred AI (HCAI) research, which integrates human needs and abilities in the design of AI interfaces. For this, an understanding is needed of how humans perceive XAI and how AI explanations influence the interaction between humans and AI. One of the open questions concerns the investigation of XAI for end-users, i.e., people who have no expertise in AI but interact with such systems or are impacted by the system's decisions. This dissertation investigates the impact of different levels of interactive XAI of white- and black-box AI systems on end-users perceptions. Based on an interdisciplinary concept presented in this work, it is examined how the content, type, and interface of explanations of DNN (black box) and rule-based systems (white box) are perceived by end-users. How XAI influences end-users mental models, trust, self-efficacy, cognitive workload, and emotional state regarding the AI system is the centre of the investigation. At the beginning of the dissertation, general concepts regarding AI, explanations, and psychological constructs of mental models, trust, self-efficacy, cognitive load, and emotions are introduced. Subsequently, related work regarding the design and investigation of XAI for users is presented. This serves as a basis for the concept of a Human-Centered Explainable AI (HC-XAI) presented in this dissertation, which combines an XAI design approach with user evaluations. The author pursues an interdisciplinary approach that integrates knowledge from the research areas of (X)AI, Human-Computer Interaction, and Psychology. Based on this interdisciplinary concept, a five-step approach is derived and applied to illustrative surveys and experiments in the empirical part of this dissertation. To illustrate the first two steps, a persona approach for HC-XAI is presented, and based on that, a template for designing personas is provided. To illustrate the usage of the template, three surveys are presented that ask end-users about their attitudes and expectations towards AI and XAI. The personas generated from the survey data indicate that end-users often lack knowledge of XAI and that their perception of it depends on demographic and personality-related characteristics. Steps three to five deal with the design of XAI for concrete applications. For this, different levels of interactive XAI are presented and investigated in experiments with end-users. For this purpose, two rule-based systems (i.e., white-box) and four systems based on DNN (i.e., black-box) are used. These are applied for three purposes: Cooperation & collaboration, education, and medical decision support. Six user studies were conducted for this purpose, which differed in the interactivity of the XAI system used. The results show that end-users trust and mental models of AI depend strongly on the context of use and the design of the explanation itself. For example, explanations that a virtual agent mediates are shown to promote trust. The content and type of explanations are also perceived differently by users. The studies also show that end-users in different application contexts of XAI feel the desire for interactive explanations. The dissertation concludes with a summary of the scientific contribution, points out limitations of the presented work, and gives an outlook on possible future research topics to integrate explanations into everyday AI systems and thus enable the comprehensible handling of AI for all people.Seit den 1950er Jahren haben Anwendungen der Künstlichen Intelligenz (KI) die Menschen in ihren Bann gezogen. Diese Faszination wurde jedoch stets von Ernüchterung über die Grenzen dieser Technologie begleitet. Heute werden Methoden des maschinellen Lernens wie Deep Neural Networks (DNN) erfolgreich für verschiedene Aufgaben eingesetzt. Doch auch diese Methoden haben ihre Grenzen: Durch ihre Komplexität sind ihre Entscheidungen für den Menschen nicht mehr nachvollziehbar - sie sind Black-Boxes. Der Forschungszweig der Erklärbaren KI (engl. XAI) hat sich diesem Problem angenommen und untersucht, wie man KI-Entscheidungen nachvollziehbar machen kann. Dieser Wunsch ist nicht neu. In den 1970er Jahren beschäftigten sich die Entwickler von intrinsisch erklärbaren KI-Ansätzen, so genannten White-Boxes (z. B. regelbasierte Systeme), mit KI-Erklärungen. Heutzutage, mit dem zunehmenden Einsatz von KI-Systemen in allen Lebensbereichen, wird die Gestaltung nachvollziehbarer Systeme immer wichtiger. Die Entwicklung solcher Systeme ist Teil der Menschzentrierten KI (engl. HCAI) Forschung, die menschliche Bedürfnisse und Fähigkeiten in die Gestaltung von KI-Schnittstellen integriert. Dafür ist ein Verständnis darüber erforderlich, wie Menschen XAI wahrnehmen und wie KI-Erklärungen die Interaktion zwischen Mensch und KI beeinflussen. Eine der offenen Fragen betrifft die Untersuchung von XAI für Endnutzer, d.h. Menschen, die keine Expertise in KI haben, aber mit solchen Systemen interagieren oder von deren Entscheidungen betroffen sind. In dieser Dissertation wird untersucht, wie sich verschiedene Stufen interaktiver XAI von White- und Black-Box-KI-Systemen auf die Wahrnehmung der Endnutzer auswirken. Basierend auf einem interdisziplinären Konzept, das in dieser Arbeit vorgestellt wird, wird untersucht, wie der Inhalt, die Art und die Schnittstelle von Erklärungen von DNN (Black-Box) und regelbasierten Systemen (White-Box) von Endnutzern wahrgenommen werden. Wie XAI die mentalen Modelle, das Vertrauen, die Selbstwirksamkeit, die kognitive Belastung und den emotionalen Zustand der Endnutzer in Bezug auf das KI-System beeinflusst, steht im Mittelpunkt der Untersuchung. Zu Beginn der Arbeit werden allgemeine Konzepte zu KI, Erklärungen und psychologische Konstrukte von mentalen Modellen, Vertrauen, Selbstwirksamkeit, kognitiver Belastung und Emotionen vorgestellt. Anschließend werden verwandte Arbeiten bezüglich dem Design und der Untersuchung von XAI für Nutzer präsentiert. Diese dienen als Grundlage für das in dieser Dissertation vorgestellte Konzept einer Menschzentrierten Erklärbaren KI (engl. HC-XAI), das einen XAI-Designansatz mit Nutzerevaluationen kombiniert. Die Autorin verfolgt einen interdisziplinären Ansatz, der Wissen aus den Forschungsbereichen (X)AI, Mensch-Computer-Interaktion und Psychologie integriert. Auf der Grundlage dieses interdisziplinären Konzepts wird ein fünfstufiger Ansatz abgeleitet und im empirischen Teil dieser Arbeit auf exemplarische Umfragen und Experimente und angewendet. Zur Veranschaulichung der ersten beiden Schritte wird ein Persona-Ansatz für HC-XAI vorgestellt und darauf aufbauend eine Vorlage für den Entwurf von Personas bereitgestellt. Um die Verwendung der Vorlage zu veranschaulichen, werden drei Umfragen präsentiert, in denen Endnutzer zu ihren Einstellungen und Erwartungen gegenüber KI und XAI befragt werden. Die aus den Umfragedaten generierten Personas zeigen, dass es den Endnutzern oft an Wissen über XAI mangelt und dass ihre Wahrnehmung dessen von demografischen und persönlichkeitsbezogenen Merkmalen abhängt. Die Schritte drei bis fünf befassen sich mit der Gestaltung von XAI für konkrete Anwendungen. Hierzu werden verschiedene Stufen interaktiver XAI vorgestellt und in Experimenten mit Endanwendern untersucht. Zu diesem Zweck werden zwei regelbasierte Systeme (White-Box) und vier auf DNN basierende Systeme (Black-Box) verwendet. Diese werden für drei Zwecke eingesetzt: Kooperation & Kollaboration, Bildung und medizinische Entscheidungsunterstützung. Hierzu wurden sechs Nutzerstudien durchgeführt, die sich in der Interaktivität des verwendeten XAI-Systems unterschieden. Die Ergebnisse zeigen, dass das Vertrauen und die mentalen Modelle der Endnutzer in KI stark vom Nutzungskontext und der Gestaltung der Erklärung selbst abhängen. Es hat sich beispielsweise gezeigt, dass Erklärungen, die von einem virtuellen Agenten vermittelt werden, das Vertrauen fördern. Auch der Inhalt und die Art der Erklärungen werden von den Nutzern unterschiedlich wahrgenommen. Die Studien zeigen zudem, dass Endnutzer in unterschiedlichen Anwendungskontexten von XAI den Wunsch nach interaktiven Erklärungen verspüren. Die Dissertation schließt mit einer Zusammenfassung des wissenschaftlichen Beitrags, weist auf Grenzen der vorgestellten Arbeit hin und gibt einen Ausblick auf mögliche zukünftige Forschungsthemen, um Erklärungen in alltägliche KI-Systeme zu integrieren und damit den verständlichen Umgang mit KI für alle Menschen zu ermöglichen

The Multimodal Tutor: Adaptive Feedback from Multimodal Experiences

This doctoral thesis describes the journey of ideation, prototyping and empirical testing of the Multimodal Tutor, a system designed for providing digital feedback that supports psychomotor skills acquisition using learning and multimodal data capturing. The feedback is given in real-time with machine-driven assessment of the learner's task execution. The predictions are tailored by supervised machine learning models trained with human annotated samples. The main contributions of this thesis are: a literature survey on multimodal data for learning, a conceptual model (the Multimodal Learning Analytics Model), a technological framework (the Multimodal Pipeline), a data annotation tool (the Visual Inspection Tool) and a case study in Cardiopulmonary Resuscitation training (CPR Tutor). The CPR Tutor generates real-time, adaptive feedback using kinematic and myographic data and neural networks

Virtualising visualisation: A distributed service based approach to visualisation on the Grid

Context: Current visualisation systems are not designed to work with the large quantities of data produced by scientists today, they rely on the abilities of a single resource to perform all of the processing and visualisation of data which limits the problem size that they can investigate. Objectives: The objectives of this research are to address the issues encountered by scientists with current visualisation systems and the deficiencies highlighted in current visualisation systems. The research then addresses the question:” How do you design the ideal service oriented architecture for visualisation that meets the needs of scientists?” Method: A new design for a visualisation system based upon a Service Oriented Architecture is proposed to address the issues identified, the architecture is implemented using Java and web service technology. The implementation of the architecture also realised several case study scenarios as demonstrators. Evaluation: Evaluation was performed using case study scenarios of scientific problems and performance data was conducted through experimentation. The scenarios were assessed against the requirements for the architecture and the performance data against a base case simulating a single resource implementation. Conclusion: The virtualised visualisation architecture shows promise for applications where visualisation can be performed in a highly parallel manner and where the problem can be easily sub-divided into chunks for distributed processing

Application of Common Sense Computing for the Development of a Novel Knowledge-Based Opinion Mining Engine

The ways people express their opinions and sentiments have radically changed in the past few years thanks to the advent of social networks, web communities, blogs, wikis and other online collaborative media. The distillation of knowledge from this huge amount of unstructured information can be a key factor for marketers who want to create an image or identity in the minds of their customers for their product, brand, or organisation. These online social data, however, remain hardly accessible to computers, as they are specifically meant for human consumption. The automatic analysis of online opinions, in fact, involves a deep understanding of natural language text by machines, from which we are still very far. Hitherto, online information retrieval has been mainly based on algorithms relying on the textual representation of web-pages. Such algorithms are very good at retrieving texts, splitting them into parts, checking the spelling and counting their words. But when it comes to interpreting sentences and extracting meaningful information, their capabilities are known to be very limited. Existing approaches to opinion mining and sentiment analysis, in particular, can be grouped into three main categories: keyword spotting, in which text is classified into categories based on the presence of fairly unambiguous affect words; lexical affinity, which assigns arbitrary words a probabilistic affinity for a particular emotion; statistical methods, which calculate the valence of affective keywords and word co-occurrence frequencies on the base of a large training corpus. Early works aimed to classify entire documents as containing overall positive or negative polarity, or rating scores of reviews. Such systems were mainly based on supervised approaches relying on manually labelled samples, such as movie or product reviews where the opinionist’s overall positive or negative attitude was explicitly indicated. However, opinions and sentiments do not occur only at document level, nor they are limited to a single valence or target. Contrary or complementary attitudes toward the same topic or multiple topics can be present across the span of a document. In more recent works, text analysis granularity has been taken down to segment and sentence level, e.g., by using presence of opinion-bearing lexical items (single words or n-grams) to detect subjective sentences, or by exploiting association rule mining for a feature-based analysis of product reviews. These approaches, however, are still far from being able to infer the cognitive and affective information associated with natural language as they mainly rely on knowledge bases that are still too limited to efficiently process text at sentence level. In this thesis, common sense computing techniques are further developed and applied to bridge the semantic gap between word-level natural language data and the concept-level opinions conveyed by these. In particular, the ensemble application of graph mining and multi-dimensionality reduction techniques on two common sense knowledge bases was exploited to develop a novel intelligent engine for open-domain opinion mining and sentiment analysis. The proposed approach, termed sentic computing, performs a clause-level semantic analysis of text, which allows the inference of both the conceptual and emotional information associated with natural language opinions and, hence, a more efficient passage from (unstructured) textual information to (structured) machine-processable data. The engine was tested on three different resources, namely a Twitter hashtag repository, a LiveJournal database and a PatientOpinion dataset, and its performance compared both with results obtained using standard sentiment analysis techniques and using different state-of-the-art knowledge bases such as Princeton’s WordNet, MIT’s ConceptNet and Microsoft’s Probase. Differently from most currently available opinion mining services, the developed engine does not base its analysis on a limited set of affect words and their co-occurrence frequencies, but rather on common sense concepts and the cognitive and affective valence conveyed by these. This allows the engine to be domain-independent and, hence, to be embedded in any opinion mining system for the development of intelligent applications in multiple fields such as Social Web, HCI and e-health. Looking ahead, the combined novel use of different knowledge bases and of common sense reasoning techniques for opinion mining proposed in this work, will, eventually, pave the way for development of more bio-inspired approaches to the design of natural language processing systems capable of handling knowledge, retrieving it when necessary, making analogies and learning from experience