title: Automation and integration of components for generalized semantic markup of electronic medical texts.
abstract: Our group has built an information retrieval system based on a complex semantic markup of medical textbooks. We describe the construction of a set of web-based knowledge-acquisition tools that expedites the collection and maintenance of the concepts required for text markup and the search interface required for information retrieval from the marked text. In the text markup system, domain experts (DEs) identify sections of text that contain one or more elements from a finite set of concepts. End users can then query the text using a predefined set of questions, each of which identifies a subset of complementary concepts. The search process matches that subset of concepts to relevant points in the text. The current process requires that the DE invest significant time to generate the required concepts and questions. We propose a new system--called ACQUIRE (Acquisition of Concepts and Queries in an Integrated Retrieval Environment)--that assists a DE in two essential tasks in the text-markup process. First, it helps her to develop, edit, and maintain the concept model: the set of concepts with which she marks the text. Second, ACQUIRE helps her to develop a query model: the set of specific questions that end users can later use to search the marked text. The DE incorporates concepts from the concept model when she creates the questions in the query model. The major benefit of the ACQUIRE system is a reduction in the time and effort required for the text-markup process. We compared the process of concept- and query-model creation using ACQUIRE to the process used in previous work by rebuilding two existing models that we previously constructed manually. We observed a significant decrease in the time required to build and maintain the concept and query models.
authors.affiliation: Stanford Medical Informatics, Department of Medicine, Stanford University School of Medicine, California, USA.
authors.forename: J M
authors.initials: JM
authors.lastname: Dugan
authors.forename: D C
authors.initials: DC
authors.lastname: Berrios
authors.forename: X
authors.initials: X
authors.lastname: Liu
authors.forename: D K
authors.initials: DK
authors.lastname: Kim
authors.forename: H
authors.initials: H
authors.lastname: Kaizer
authors.forename: L M
authors.initials: LM
authors.lastname: Fagan
mesh_terms: D000043:Abstracting and Indexing / Q000379:methods*; D005103:Expert Systems; D006801:Humans; D016247:Information Storage and Retrieval; D007256:Information Systems; D011381:Programming Languages; D012660:Semantics; D013782:Textbooks as Topic