Abstract This article presents our steps to integrate complex and partly unstructured medical data into a clinical research database with subsequent decision support. Our main application is an integrated faceted search tool, accompanied by the visualisation of results of automatic information extraction from textual documents. We describe the details of our technical architecture (open-source tools), to be replicated at other universities, research institutes, or hospitals. Our exemplary use cases are nephrology and mammography. The software was first developed in the nephrology domain and then adapted to the mammography use case. We report on these case studies, illustrating how the application can be used by a clinician and which questions can be answered. We show that our architecture and the employed software modules are suitable for both areas of application with a limited amount of adaptations. For example, in nephrology we try to answer questions about the temporal characteristics of event sequences to gain significant insight from the data for cohort selection. We present a versatile time-line tool that enables the user to explore relations between a multitude of diagnosis and laboratory values.
Information visualisation is the study of interactive visual representations of abstract data to reinforce human cognition. The abstract data, here the facets, include both numerical and non-numerical text data. We base our implementation on the visualisation proposed by @cite_21 , focussing on answering questions regarding the number of records that include a specific event sequence, for example a question like In @cite_1 , the authors identified five main usability points in the medical domain which we have implemented accordingly: (1) visualise and review the data from individual records and their event sequences; (2) search for temporal patterns of interest, using a powerful graphical interface; (3) summarise all the event sequences, their timing and prevalence, and find anomalies; (4) perform data transformations to reveal useful patterns that answer questions you have; (5) select cohorts of interest for further studies.
@cite_21 @cite_1
2509421351 2150085383 2012118336 2035585180
Visualization is a powerful technique for analysis and communication of complex, multidimensional, and time-varying data. However, it can be difficult to manually synthesize a coherent narrative in a chart or graph due to the quantity of visualized attributes, a variety of salient features, and the awareness required to interpret points of interest (POls). We present Temporal Summary Images (TSIs) as an approach for both exploring this data and creating stories from it. As a visualization, a TSI is composed of three common components: (1) a temporal layout, (2) comic strip-style data snapshots, and (3) textual annotations. To augment user analysis and exploration, we have developed a number of interactive techniques that recommend relevant data features and design choices, including an automatic annotations workflow. As the analysis and visual design processes converge, the resultant image becomes appropriate for data storytelling. For validation, we use a prototype implementation for TSIs to conduct two case studies with large-scale, scientific simulation datasets. Information visualisation is about gaining insight into data through a visual representation. This data is often multivariate and increasingly, the datasets are very large. To help us explore all this data, numerous visualisation applications, both commercial and research prototypes, have been designed using a variety of techniques and algorithms. Whether they are dedicated to geo-spatial data or skewed hierarchical data, most of the visualisations need to adopt strategies for dealing with overcrowded displays, brought about by too much data to fit in too small a display space. This paper analyses a large number of these clutter reduction methods, classifying them both in terms of how they deal with clutter reduction and more importantly, in terms of the benefits and losses. The aim of the resulting taxonomy is to act as a guide to match techniques to problems where different criteria may have different importance, and more importantly as a means to critique and hence develop existing and new techniques. Interactive visualization provides valuable support for exploring, analyzing, and understanding textual documents. Certain tasks, however, require that insights derived from visual abstractions are verified by a human expert perusing the source text. So far, this problem is typically solved by offering overview-detail techniques, which present different views with different levels of abstractions. This often leads to problems with visual continuity. Focus-context techniques, on the other hand, succeed in accentuating interesting subsections of large text documents but are normally not suited for integrating visual abstractions. With VarifocalReader we present a technique that helps to solve some of these approaches' problems by combining characteristics from both. In particular, our method simplifies working with large and potentially complex text documents by simultaneously offering abstract representations of varying detail, based on the inherent structure of the document, and access to the text itself. In addition, VarifocalReader supports intra-document exploration through advanced navigation concepts and facilitates visual analysis tasks. The approach enables users to apply machine learning techniques and search mechanisms as well as to assess and adapt these techniques. This helps to extract entities, concepts and other artifacts from texts. In combination with the automatic generation of intermediate text levels through topic segmentation for thematic orientation, users can test hypotheses or develop interesting new research questions. To illustrate the advantages of our approach, we provide usage examples from literature studies. levels, such as Pet6fi's text grammar and Rumelhart's schemata for stories. By defining permissible interrelations between constituents of larger texts at all levels of abstraction, these create meaning structures organized on both hierarchical and associative principles, rather than on a sequential basis. The automated "understanding" process consists of instantiating an appropriate set of event templates by associating a given text with the ERGO inventory of event templates and const ucting a network of instanti ted templates based on intertemplate relational rules and constraints. The network of instantiated t mplates thus represents the information content of the unstructured original text, and provides the structured input for the event record data bas . Details of the automated understanding process presented here in the abstract are given in the follo ing section. 3.2 Processing Principles. The process of data base generation involves two major functions: (1) co tent analysis of the incoming text (2) event record synthesis (or production) The first involves constructing a meaning representation of the text and the second the extraction of relevant information and its storage in a data base record. The major focus of ERGO is on reports of a particular class of events which describe aircraft movements. The unit of analysis is therefore the report, a textual unit consisting of one or more par graphs, each containing one or more sentences. The first step in the analytical process involves a lexical lookup: a lexical entry contains morphological, syntactic and semantic information, on the lines of Sager (1973) and (1973). Each sentence is then subjected to a syntactic analysis by means of an Augmented Transition Network (ATN) parser (Woods, 1970). Since event templates are based on propositional structures, the analytical