Formulating Complex Queries Using Templates

While many users have relatively general information needs, users who are familiar with a certain topic may have more specific or complex information needs. Such users already have some knowledge of a subject and its concepts, and they need to find information on a specific aspect of a certain entity, such as its cause, effect, and relationships between entities. To successfully resolve this kind of complex information needs, in our study, we investigated the effectiveness of topic-independent query templates as a tool for assisting users in articulating their information needs. A set of query templates, which were written in the form of fill-in-the-blanks was designed to represent general semantic relationships between concepts, such as cause-effect and problem-solution. To conduct the research, we designed a control interface with a single query textbox and an experimental interface with the query templates. A user study was performed with 30 users. Okapi information retrieval system was used to retrieve documents in response to the users’ queries. The analysis in this paper indicates that while users found the template-based query formulation less easy to use, the queries written using templates performed better than the queries written using the control interface with one query textbox. Our analysis of a group of users and some specific topics demonstrates that the experimental interface tended to help users create more detailed search queries and the users were able to think about different aspects of their complex information needs and fill in many templates. In the future, an interesting research direction would be to tune the templates, adapting them to users’ specific query requests and avoiding showing non-relevant templates to users by automatically selecting related templates from a larger set of templates

Winnowing ontologies based on application use

The requirements of specific applications and services are often over estimated when ontologies are reused or built. This sometimes results in many ontologies being too large for their intended purposes. It is not uncommon that when applications and services are deployed over an ontology, only a few parts of the ontology are queried and used. Identifying which parts of an ontology are being used could be helpful to winnow the ontology, i.e., simplify or shrink the ontology to smaller, more fit for purpose size. Some approaches to handle this problem have already been suggested in the literature. However, none of that work showed how ontology-based applications can be used in the ontology-resizing process, or how they might be affected by it. This paper presents a study on the use of the AKT Reference Ontology by a number of applications and services,and investigates the possibility of relying on this usage information to winnow that ontology

Easing the questioning of semantic biomedical data

Researchers have been using semantic technologies as essential tools to structure knowledge. This is particularly relevant in the biomedical domain, where large dataset are continuously generated. Semantic technologies offer the ability to describe data and to map and linking distributed repositories, creating a network where the searching interface is a single entry point. However, the increasing number of semantic data repositories that are publicly available is creating new challenges related to its exploration. Despite being human and machine-readable, these technologies are much more challenging for end-users. Querying services usually require mastering formal languages and that knowledge is beyond the typical user’s expertise, being a critical issue in adopting semantic web information systems. In particular, the questioning of biomedical data presents specific challenges for which there are still no mature proposals for production environments. This paper presents a solution to query biomedical semantic databases using natural language. The system is at the intersection between semantic parsing and the use of templates. It makes it possible to extract information in a friendly way for users who are not experts in semantic queries.FCT - Portuguese Foundation for Science and Technology supports Arnaldo Pereira (Ph.D. Grant PD/BD/142877/2018).info:eu-repo/semantics/publishedVersio

Computing Health Quality Measures Using Informatics for Integrating Biology and the Bedside

Background: The Health Quality Measures Format (HQMF) is a Health Level 7 (HL7) standard for expressing computable Clinical Quality Measures (CQMs). Creating tools to process HQMF queries in clinical databases will become increasingly important as the United States moves forward with its Health Information Technology Strategic Plan to Stages 2 and 3 of the Meaningful Use incentive program (MU2 and MU3). Informatics for Integrating Biology and the Bedside (i2b2) is one of the analytical databases used as part of the Office of the National Coordinator (ONC)’s Query Health platform to move toward this goal. Objective: Our goal is to integrate i2b2 with the Query Health HQMF architecture, to prepare for other HQMF use-cases (such as MU2 and MU3), and to articulate the functional overlap between i2b2 and HQMF. Therefore, we analyze the structure of HQMF, and then we apply this understanding to HQMF computation on the i2b2 clinical analytical database platform. Specifically, we develop a translator between two query languages, HQMF and i2b2, so that the i2b2 platform can compute HQMF queries. Methods: We use the HQMF structure of queries for aggregate reporting, which define clinical data elements and the temporal and logical relationships between them. We use the i2b2 XML format, which allows flexible querying of a complex clinical data repository in an easy-to-understand domain-specific language. Results: The translator can represent nearly any i2b2-XML query as HQMF and execute in i2b2 nearly any HQMF query expressible in i2b2-XML. This translator is part of the freely available reference implementation of the QueryHealth initiative. We analyze limitations of the conversion and find it covers many, but not all, of the complex temporal and logical operators required by quality measures. Conclusions: HQMF is an expressive language for defining quality measures, and it will be important to understand and implement for CQM computation, in both meaningful use and population health. However, its current form might allow complexity that is intractable for current database systems (both in terms of implementation and computation). Our translator, which supports the subset of HQMF currently expressible in i2b2-XML, may represent the beginnings of a practical compromise. It is being pilot-tested in two Query Health demonstration projects, and it can be further expanded to balance computational tractability with the advanced features needed by measure developers

Proceedings ICPW'07: 2nd International Conference on the Pragmatic Web, 22-23 Oct. 2007, Tilburg: NL

Proceedings ICPW'07: 2nd International Conference on the Pragmatic Web, 22-23 Oct. 2007, Tilburg: N

Changing Practice in a National Legal Deposit Library

This two-part essay considers how digital culture has influenced ideas about permanence and looks at the change in collecting practice in a legal deposit library. The author asks: how is the idea of permanence, understood in cultural heritage terms, influencing digital culture and thus digital technology? The first part of the essay touches upon the concepts associated with permanence, digital culture, digital technology, social change, and cultural institutions, in relation to collecting digital cultural material. The second part of this essay focuses on the change in collecting practice of the Alexander Turnbull Library (Turnbull Library) at the National Library of New Zealand in developing its heritage collection of electronically published material with the benefit of legal deposit, with a particular focus on the change in practice to include the collection of online publications