Visual analysis of anatomy ontologies and related genomic information

Challenges in scientific research include the difficulty in obtaining overviews of the large amount of data required for analysis, and in resolving the differences in terminology used to store and interpret information in multiple, independently created data sets. Ontologies provide one solution for analysis involving multiple data sources, improving cross-referencing and data integration. This thesis looks at harnessing advanced human perception to reduce the cognitive load in the analysis of the multiple, complex data sets the bioinformatics user group studied use in research, taking advantage also of users’ domain knowledge, to build mental models of data that map to its underlying structure. Guided by a user-centred approach, prototypes were developed to provide a visual method for exploring users’ information requirements and to identify solutions for these requirements. 2D and 3D node-link graphs were built to visualise the hierarchically structured ontology data, to improve analysis of individual and comparison of multiple data sets, by providing overviews of the data, followed by techniques for detailed analysis of regions of interest. Iterative, heuristic and structured user evaluations were used to assess and refine the options developed for the presentation and analysis of the ontology data. The evaluation results confirmed the advantages that visualisation provides over text-based analysis, and also highlighted the advantages of each of 2D and 3D for visual data analysis.Overseas Research Students Awards SchemeJames Watt Scholarshi

Mediating between AI and highly specialized users

We report part of the design experience gained in X-Media, a system for knowledge management and sharing. Consolidated techniques of interaction design (scenario-based design) had to be revisited to capture the richness and complexity of intelligent interactive systems. We show that the design of intelligent systems requires methodologies (faceted scenarios) that support the investigation of intelligent features and usability factors simultaneously. Interaction designers become mediators between intelligent technology and users, and have to facilitate reciprocal understanding

Providing visualisation support for the analysis of anatomy ontology data

BACKGROUND: Improvements in technology have been accompanied by the generation of large amounts of complex data. This same technology must be harnessed effectively if the knowledge stored within the data is to be retrieved. Storing data in ontologies aids its management; ontologies serve as controlled vocabularies that promote data exchange and re-use, improving analysis. The Edinburgh Mouse Atlas Project stores the developmental stages of the mouse embryo in anatomy ontologies. This project is looking at the use of visual data overviews for intuitive analysis of the ontology data. RESULTS: A prototype has been developed that visualises the ontologies using directed acyclic graphs in two dimensions, with the ability to study detail in regions of interest in isolation or within the context of the overview. This is followed by the development of a technique that layers individual anatomy ontologies in three-dimensional space, so that relationships across multiple data sets may be mapped using physical links drawn along the third axis. CONCLUSION: Usability evaluations of the applications confirmed advantages in visual analysis of complex data. This project will look next at data input from multiple sources, and continue to develop the techniques presented to provide intuitive identification of relationships that span multiple ontologies

Visual Exploration of Formal Requirements for Data Science Demand Analysis

The era of Big Data brings with it the need to develop new skills for managing this heterogenous, complex, large scale knowledge source, to extract its content for effective task completion and informed decision-making. Defining these skills and mapping them to demand is a first step in meeting this challenge. We discuss the outcomes of visual exploratory analysis of demand for Data Sci- entists in the EU, examining skill distribution across key industrial sectors and geolocation for two snapshots in time. Our aim is to translate the picture of skill capacity into a formal specification of user, task and data requirements for de- mand analysis. The knowledge thus obtained will be fed into the development of context-sensitive learning resources to fill the skill gaps recognised

Public scientific communication on Twitter:visual analytic approach

Purpose - The purpose of this paper is to assess high-dimensional visualisation, combined with pattern matching, as an approach to observing dynamic changes in the ways people tweet about science topics. Design/methodology/approach - The high-dimensional visualisation approach was applied to three scientific topics to test its effectiveness for longitudinal analysis of message framing on Twitter over two disjoint periods in time. The paper uses coding frames to drive categorisation and visual analytics of tweets discussing the science topics. Findings - The findings point to the potential of this mixed methods approach, as it allows sufficiently high sensitivity to recognise and support the analysis of non-trending as well as trending topics on Twitter. Research limitations/implications - Three topics are studied and these illustrate a range of frames, but results may not be representative of all scientific topics. Social implications - Funding bodies increasingly encourage scientists to participate in public engagement. As social media provides an avenue actively utilised for public communication, understanding the nature of the dialog on this medium is important for the scientific community and the public at large. Originality/value - This study differs from standard approaches to the analysis of microblog data, which tend to focus on machine driven analysis large-scale datasets. It provides evidence that this approach enables practical and effective analysis of the content of midsize to large collections of microposts

Approaches to visualising linked data: a survey

The uptake and consumption of Linked Data is currently restricted almost entirely to the Semantic Web community. While the utility of Linked Data to non-tech savvy web users is evident, the lack of technical knowledge and an understanding of the intricacies of the semantic technology stack limit such users in their ability to interpret and make use of the Web of Data. A key solution in overcoming this hurdle is to visualise Linked Data in a coherent and legible manner, allowing non-domain and non-technical audiences to obtain a good understanding of its structure, and therefore implicitly compose queries, identify links between resources and intuitively discover new pieces of information. In this paper we describe key requirements which the visualisation of Linked Data must fulfil in order to lower the technical barrier and make the Web of Data accessible for all. We provide an extensive survey of current efforts in the Semantic Web community with respect to our requirements, and identify the potential for visual support to lead to more effective, intuitive interaction of the end user with Linked Data. We conclude with the conclusions drawn from our survey and analysis, and present proposals for advancing current Linked Data visualisation efforts

Making Sense of Microposts (#Microposts2015) Social Sciences Track

For the first time in its five year history the #Microposts workshop features a designated Social Science track. This paper introduces this new track by situating it within the overall workshop objectives. It highlights the importance of interdisciplinary studies in the attempt to make sense of Web user activities in general, and in the generation and consumption of Microposts in particular. This paper provides examples of related work in the field, such as Computational Social Science, reviews previous contributions to the #Microposts by the Social Science research community, and introduces the two papers presented in the track

Making Sense of Microposts (#Microposts2016) Computational Social Sciences Track

For the second time, the #Microposts workshop features a track to highlight social science perspectives on micro communication structures in online environments. This paper introduces the #Microposts2016 (Computational) Social Science Track, which all contribute to connecting research methods and approaches in computer science and social science. By providing a forum for closer interaction between the two fields, the track is becoming a platform for interdisciplinary projects and new ideas to combine different methodologies and theories. For this year’s special track we see the trend of relating Microposts to external demographics or survey data as a way to better understand Microposts in their broader contexts