Using UMLS to construct a generalized hierarchical concept-based dictionary of brain functions for information extraction from the fMRI literature

Authors:
Mei-Yu Hsiao;Chien-Chung Chen;Jyh-Horng Chen
Affiliations:
Interdisciplinary MRI/MRS Laboratory, Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan;Department of Psychology, National Taiwan University, Taipei, Taiwan;Interdisciplinary MRI/MRS Laboratory, Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan
Venue:
Journal of Biomedical Informatics
Year:
2009

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Abstract

With a rapid progress in the field, a great many fMRI studies are published every year, to the extent that it is now becoming difficult for researchers to keep up with the literature, since reading papers is extremely time-consuming and labor-intensive. Thus, automatic information extraction has become an important issue. In this study, we used the Unified Medical Language System (UMLS) to construct a hierarchical concept-based dictionary of brain functions. To the best of our knowledge, this is the first generalized dictionary of this kind. We also developed an information extraction system for recognizing, mapping and classifying terms relevant to human brain study. The precision and recall of our system was on a par with that of human experts in term recognition, term mapping and term classification. Our approach presented in this paper presents an alternative to the more laborious, manual entry approach to information extraction.