Sticks, balls or a ribbon? Results of a formative user study with bioinformaticians

User interfaces in modern bioinformatics tools are designed for experts. They are too complicated for\ud novice users such as bench biologists. This report presents the full results of a formative user study as part of a\ud domain and requirements analysis to enhance user interfaces and collaborative environments for\ud multidisciplinary teamwork. Contextual field observations, questionnaires and interviews with bioinformatics\ud researchers of different levels of expertise and various backgrounds were performed in order to gain insight into\ud their needs and working practices. The analysed results are presented as a user profile description and user\ud requirements for designing user interfaces that support the collaboration of multidisciplinary research teams in\ud scientific collaborative environments. Although the number of participants limits the generalisability of the\ud findings, the combination of recurrent observations with other user analysis techniques in real-life settings\ud makes the contribution of this user study novel

Using Visualization to Support Data Mining of Large Existing Databases

In this paper. we present ideas how visualization technology can be used to improve the difficult process of querying very large databases. With our VisDB system, we try to provide visual support not only for the query specification process. but also for evaluating query results and. thereafter, refining the query accordingly. The main idea of our system is to represent as many data items as possible by the pixels of the display device. By arranging and coloring the pixels according to the relevance for the query, the user gets a visual impression of the resulting data set and of its relevance for the query. Using an interactive query interface, the user may change the query dynamically and receives immediate feedback by the visual representation of the resulting data set. By using multiple windows for different parts of the query, the user gets visual feedback for each part of the query and, therefore, may easier understand the overall result. To support complex queries, we introduce the notion of approximate joins which allow the user to find data items that only approximately fulfill join conditions. We also present ideas how our technique may be extended to support the interoperation of heterogeneous databases. Finally, we discuss the performance problems that are caused by interfacing to existing database systems and present ideas to solve these problems by using data structures supporting a multidimensional search of the database

Applying a User-centred Approach to Interactive Visualization Design

Analysing users in their context of work and finding out how and why they use different information resources is essential to provide interactive visualisation systems that match their goals and needs. Designers should actively involve the intended users throughout the whole process. This chapter presents a user-centered approach for the design of interactive visualisation systems. We describe three phases of the iterative visualisation design process: the early envisioning phase, the global specification hase, and the detailed specification phase. The whole design cycle is repeated until some criterion of success is reached. We discuss different techniques for the analysis of users, their tasks and domain. Subsequently, the design of prototypes and evaluation methods in visualisation practice are presented. Finally, we discuss the practical challenges in design and evaluation of collaborative visualisation environments. Our own case studies and those of others are used throughout the whole chapter to illustrate various approaches

On the role of pre and post-processing in environmental data mining

The quality of discovered knowledge is highly depending on data quality. Unfortunately real data use to contain noise, uncertainty, errors, redundancies or even irrelevant information. The more complex is the reality to be analyzed, the higher the risk of getting low quality data. Knowledge Discovery from Databases (KDD) offers a global framework to prepare data in the right form to perform correct analyses. On the other hand, the quality of decisions taken upon KDD results, depend not only on the quality of the results themselves, but on the capacity of the system to communicate those results in an understandable form. Environmental systems are particularly complex and environmental users particularly require clarity in their results. In this paper some details about how this can be achieved are provided. The role of the pre and post processing in the whole process of Knowledge Discovery in environmental systems is discussed

Detecting domestic violence.

Over 90% of the case data from police inquiries is stored as unstructured text in police databases. We use the combination of Formal Concept Analysis and Emergent Self Organizing Maps for exploring a dataset of unstructured police reports out of the Amsterdam-Amstelland police region in the Netherlands. In this paper, we specifically aim at making the reader familiar with how we used these two tools for browsing the dataset and how we discovered useful patterns for labelling cases as domestic or as non-domestic violence.Formal concept analysis (FCA); Emergent SOM; Domestic violence; Knowledge discovery in databases; Text mining; Exploratory data analysis;

A case of using formal concept analysis in combination with emergent self organizing maps for detecting domestic violence.

In this paper, we propose a framework for iterative knowledge discovery from unstructured text using Formal Concept Analysis and Emergent Self Organizing Maps. We apply the framework to a real life case study using data from the Amsterdam-Amstelland police. The case zooms in on the problem of distilling concepts for domestic violence from the unstructured text in police reports. Our human-centered framework facilitates the exploration of the data and allows for an efficient incorporation of prior expert knowledge to steer the discovery process. This exploration resulted in the discovery of faulty case labellings, common classification errors made by police officers, confusing situations, missing values in police reports, etc. The framework was also used for iteratively expanding a domain-specific thesaurus. Furthermore, we showed how the presented method was used to develop a highly accurate and comprehensible classification model that automatically assigns a domestic or non-domestic violence label to police reports.Formal concept analysis; Emergent self organizing map; Text mining; Actionable knowledge discovery; Domestic violence;

Curbing domestic violence: instantiating C-K theory with formal concept analysis and emergent self organizing maps.

In this paper we propose a human-centered process for knowledge discovery from unstructured text that makes use of Formal Concept Analysis and Emergent Self Organizing Maps. The knowledge discovery process is conceptualized and interpreted as successive iterations through the Concept-Knowledge (C-K) theory design square. To illustrate its effectiveness, we report on a real-life case study of using the process at the Amsterdam-Amstelland police in the Netherlands aimed at distilling concepts to identify domestic violence from the unstructured text in actual police reports. The case study allows us to show how the process was not only able to uncover the nature of a phenomenon such as domestic violence, but also enabled analysts to identify many types of anomalies in the practice of policing. We will illustrate how the insights obtained from this exercise resulted in major improvements in the management of domestic violence cases.Formal concept analysis; Emergent self organizing map; C-K theory; Text mining; Actionable knowledge discovery; Domestic violence;