National Center for Biomedical Ontology: Advancing biomedicine through structured organization of scientific knowledge

The National Center for Biomedical Ontology is a consortium that comprises leading informaticians, biologists, clinicians, and ontologists, funded by the National Institutes of Health (NIH) Roadmap, to develop innovative technology and methods that allow scientists to record, manage, and disseminate biomedical information and knowledge in machine-processable form. The goals of the Center are (1) to help unify the divergent and isolated efforts in ontology development by promoting high quality open-source, standards-based tools to create, manage, and use ontologies, (2) to create new software tools so that scientists can use ontologies to annotate and analyze biomedical data, (3) to provide a national resource for the ongoing evaluation, integration, and evolution of biomedical ontologies and associated tools and theories in the context of driving biomedical projects (DBPs), and (4) to disseminate the tools and resources of the Center and to identify, evaluate, and communicate best practices of ontology development to the biomedical community. Through the research activities within the Center, collaborations with the DBPs, and interactions with the biomedical community, our goal is to help scientists to work more effectively in the e-science paradigm, enhancing experiment design, experiment execution, data analysis, information synthesis, hypothesis generation and testing, and understand human disease

Terminology Extraction for and from Communications in Multi-disciplinary Domains

Terminology extraction generally refers to methods and systems for identifying term candidates in a uni-disciplinary and uni-lingual environment such as engineering, medical, physical and geological sciences, or administration, business and leisure. However, as human enterprises get more and more complex, it has become increasingly important for teams in one discipline to collaborate with others from not only a non-cognate discipline but also speaking a different language. Disaster mitigation and recovery, and conflict resolution are amongst the areas where there is a requirement to use standardised multilingual terminology for communication. This paper presents a feasibility study conducted to build terminology (and ontology) in the domain of disaster management and is part of the broader work conducted for the EU project Sland \ub4 ail (FP7 607691). We have evaluated CiCui (for Chinese name \ub4 \u8bcd\u8403, which translates to words gathered), a corpus-based text analytic system that combine frequency, collocation and linguistic analyses to extract candidates terminologies from corpora comprised of domain texts from diverse sources. CiCui was assessed against four terminology extraction systems and the initial results show that it has an above average precision in extracting terms

What is usability in the context of the digital library and how can it be measured?

This paper reviews how usability has been defined in the context of the digital library, what methods have been applied and their applicability, and proposes an evaluation model and a suite of instruments for evaluating usability for academic digital libraries. The model examines effectiveness, efficiency, satisfaction, and learnability. It is found that there exists an interlocking relationship among effectiveness, efficiency, and satisfaction. It also examines how learnability interacts with these three attributes

Thesauri on the Web: current developments and trends

This article provides an overview of recent developments relating to the application of thesauri in information organisation and retrieval on the World Wide Web. It describes some recent thesaurus projects undertaken to facilitate resource description and discovery and access to wide-ranging information resources on the Internet. Types of thesauri available on the Web, thesauri integrated in databases and information retrieval systems, and multiple-thesaurus systems for cross-database searching are also discussed. Collective efforts and events in addressing the standardisation and novel applications of thesauri are briefly reviewed

Principles in Patterns (PiP) : Heuristic Evaluation of Course and Class Approval Online Pilot (C-CAP)

The PiP Evaluation Plan documents four distinct evaluative strands, the first of which entails an evaluation of the PiP system pilot (WP7:37). Phase 1 of this evaluative strand focuses on the heuristic evaluation of the PiP Course and Class Approval Online Pilot system (C-CAP). Heuristic evaluation is an established usability inspection and testing technique and is most commonly deployed in Human-Computer Interaction (HCI) research, e.g. to test user interface designs, technology systems testing, etc. The success of heuristic evaluation in detecting 'major' and 'minor' usability problems is well documented, but its principal limitation is its inability to capture data on all possible usability problems. For this reason heuristic evaluation is often used as a precursor to user testing, e.g. so that user testing focuses on deeper system issues rather than on those that can easily be debugged. Heuristic evaluation nevertheless remains an important usability inspection technique and research continues to demonstrate its success in detecting usability problems which would otherwise evade detection in user testing sessions. For this reason experts maintain that heuristic evaluation should be used to complement user testing. This is reflected in the PiP Evaluation Plan, which proposes protocol analysis, stimulated recall and pre- and post-test questionnaire instruments to comprise user testing (see WP7:37 phases 2, 3 and 4 of PiP Evaluation Plan). This brief report summarises the methodology deployed, presents the results of the heuristic evaluation and proposes solutions or recommendations to address the heuristic violations that were found to exist in the C-CAP system. It is anticipated that some solutions will be implemented within the lifetime of the project. This is consistent with the incremental systems design methodology that PiP has adopted

The Digital Anatomist Information System and Its Use in the Generation and Delivery of Web-Based Anatomy Atlases

Advances in network and imaging technology, coupled with the availability of 3-D datasets such as the Visible Human, provide a unique opportunity for developing information systems in anatomy that can deliver relevant knowledge directly to the clinician, researcher or educator. A software framework is described for developing such a system within a distributed architecture that includes spatial and symbolic anatomy information resources, Web and custom servers, and authoring and end-user client programs. The authoring tools have been used to create 3-D atlases of the brain, knee and thorax that are used both locally and throughout the world. For the one and a half year period from June 1995–January 1997, the on-line atlases were accessed by over 33,000 sites from 94 countries, with an average of over 4000 ‘‘hits’’ per day, and 25,000 hits per day during peak exam periods. The atlases have been linked to by over 500 sites, and have received at least six unsolicited awards by outside rating institutions. The flexibility of the software framework has allowed the information system to evolve with advances in technology and representation methods. Possible new features include knowledge-based image retrieval and tutoring, dynamic generation of 3-D scenes, and eventually, real-time virtual reality navigation through the body. Such features, when coupled with other on-line biomedical information resources, should lead to interesting new ways for managing and accessing structural information in medicine

Thesaurus-assisted search term selection and query expansion: a review of user-centred studies

This paper provides a review of the literature related to the application of domain-specific thesauri in the search and retrieval process. Focusing on studies which adopt a user-centred approach, the review presents a survey of the methodologies and results from empirical studies undertaken on the use of thesauri as sources of term selection for query formulation and expansion during the search process. It summaries the ways in which domain-specific thesauri from different disciplines have been used by various types of users and how these tools aid users in the selection of search terms. The review consists of two main sections covering, firstly studies on thesaurus-aided search term selection and secondly those dealing with query expansion using thesauri. Both sections are illustrated with case studies that have adopted a user-centred approach

Designing a gamified social platform for people living with dementia and their live-in family caregivers

In the current paper, a social gamified platform for people living with dementia and their live-in family caregivers, integrating a broader diagnostic approach and interactive interventions is presented. The CAREGIVERSPRO-MMD (C-MMD) platform constitutes a support tool for the patient and the informal caregiver - also referred to as the dyad - that strengthens self-care, and builds community capacity and engagement at the point of care. The platform is implemented to improve social collaboration, adherence to treatment guidelines through gamification, recognition of progress indicators and measures to guide management of patients with dementia, and strategies and tools to improve treatment interventions and medication adherence. Moreover, particular attention was provided on guidelines, considerations and user requirements for the design of a User-Centered Design (UCD) platform. The design of the platform has been based on a deep understanding of users, tasks and contexts in order to improve platform usability, and provide adaptive and intuitive User Interfaces with high accessibility. In this paper, the architecture and services of the C-MMD platform are presented, and specifically the gamification aspects. © 2018 Association for Computing Machinery.Peer ReviewedPostprint (author's final draft

Motivational Social Visualizations for Personalized E-Learning

A large number of educational resources is now available on the Web to support both regular classroom learning and online learning. However, the abundance of available content produces at least two problems: how to help students find the most appropriate resources, and how to engage them into using these resources and benefiting from them. Personalized and social learning have been suggested as potential methods for addressing these problems. Our work presented in this paper attempts to combine the ideas of personalized and social learning. We introduce Progressor + , an innovative Web-based interface that helps students find the most relevant resources in a large collection of self-assessment questions and programming examples. We also present the results of a classroom study of the Progressor +  in an undergraduate class. The data revealed the motivational impact of the personalized social guidance provided by the system in the target context. The interface encouraged students to explore more educational resources and motivated them to do some work ahead of the course schedule. The increase in diversity of explored content resulted in improving students’ problem solving success. A deeper analysis of the social guidance mechanism revealed that it is based on the leading behavior of the strong students, who discovered the most relevant resources and created trails for weaker students to follow. The study results also demonstrate that students were more engaged with the system: they spent more time in working with self-assessment questions and annotated examples, attempted more questions, and achieved higher success rates in answering them

Investigating the feasibility of a distributed, mapping-based, approach to solving subject interoperability problems in a multi-scheme, cross-service, retrieval environment

The HILT project is researching the problems of facilitating interoperability of subject descriptions in a distributed multi-scheme environment. HILT Phase I found a UK community consensus in favour of utilising an inter-scheme mapping service to improve interoperability. HILT Phase II investigated the approach by building a pilot server, and identified a range of issues that would have to be tackled if an operational service was to be successful. HILT Phase III will implement a centralised version of an M2M pilot, but will aim to design it so that the possibility of a move to a distributed service remains open. This aim will impact on likely future research concerns in Phase III and beyond. Wide adoption of a distributed approach to the problem could lead to the creation of a framework within which regional, national, and international efforts in the area can be harmonised and co-ordinated