Cited By
View all- Jing X(2020)UMLS at 30 years: How it is used and published (Preprint)JMIR Medical Informatics10.2196/20675Online publication date: 25-May-2020
Cataloguing Spanish Medical Reports with UMLS Terms
Authors: 
Félix Buendía, Joaquin Gayoso-Cabada, Juan-Antonio Juanes-Méndez, Manuela Martín-Izquierdo, José-Luis SierraAuthors Info & Claims
Pages 423 - 430
Abstract
UMLS (Unified Medical Language System) is one of the most comprehensive terminological resources for the medical domain. Thus, the provision of instruments to assist in the cataloguing of medical reports with UMLS is of utmost relevance, especially when these reports are written in unstructured free-text natural language. For this purpose, it is possible to use tools that, like MetaMap, enable the automatic annotation of clinical texts with UMLS terms. However, these tools typically work on reports written in English, which seriously hinders their applicability to other languages. In this paper, we describe an approach to mitigate these shortcomings, which pipelines state-of-the-art language translation services with automatic mapping tools. We demonstrate the feasibility of the approach by combining Google Translate with MetaMap and by using the resulting pipeline to catalog, with UMLS, a representative set of Spanish-written X-Ray Thorax reports corresponding to images taken from the Indiana Chest X-ray radiology corpus. The resulting cataloguing is not significantly different, in quality, from that obtained through the direct application of MetaMap on a similar set of reports written in English and selected from this Indiana Chest X-ray corpus.
References
[1]
McMorrow L. Breaking the Greco-Roman Mold in Medical Writing: The Many Languages of 20th Century Medicine in: Fischbach H. (ed.) Translation and Medicine. 13--28 Amsterdam / Philadelphia: John Benjamins (1998).
[2]
Montgomery S.L. English and Science: realities and issues for translation in the age of an expanding lingua franca. The Journal of Specialised Translation. Issue 11, 2009.
[3]
Gotti, M. Investigating specialized discourse. Peter Lang (2008).
[4]
Bodenreider. O. The unified medical language system (UMLS): integrating biomedical terminology. Nucleic acids research.; vol. 32, pp. 267--270, 2004.
[5]
Aronson A.R. Effective mapping of biomedical text to the UMLS Metathesaurus: the metamap program" Proc AMIA Symposium, 2001, pp. 17--21.
[6]
Bouayad-Agha N., Power R. and Belz A., 2002. PILLS: Multilingual generation ofmedical information documents with overlapping content. In Proceedings of the Third International Conference on Language Resources and Evaluation (LREC), p. 2111--2114.
[7]
Mićić, S. Languages of Medicine-present and future. JAHR, 4(7), 2013, 217--233.
[8]
Steinberger, R. (2012). A survey of methods to ease the development of highly multilingual text mining applications. Language Resources and Evaluation, 46(2), 155--176.
[9]
Cotik, V., Filippo, D., Roller, R., Uszkoreit, H., & Xu, F. (2017, September). Annotation of Entities and Relations in Spanish Radiology Reports. In RANLP (pp. 177--184).
[10]
Roller, R., Rethmeier, N., Thomas, P., Hübner, M., Uszkoreit, H., Staeck, O., ... & Schmidt, D. (2017, September). Detecting named entities and relations in German clinical reports. In International Conference of the German Society for Computational Linguistics and Language Technology (pp. 146--154). Springer, Cham.
[11]
Carrero, F. M., Cortizo, J. C., Gómez, J. M., & De Buenaga, M. (2008, October). In the development of a spanish metamap. In Proceedings of the 17th ACM conference on Information and knowledge management (pp. 1465--1466). ACM.
[12]
Névéol, A., Dalianis, H., Velupillai, S., Savova, G., & Zweigenbaum, P. (2018). Clinical natural language processing in languages other than english: opportunities and challenges. Journal of biomedical semantics, 9(1), 12.
[13]
Txabarriaga, R. IMIA Guide on Medical Translation. International Medical Interpreters Association. January2009.
[14]
Karwacka, W. (2014). Quality assurance in medical translation. The Journal of Specialised Translation, 21, 19--34.
[15]
Stearns, M. Q., Price, C., Spackman, K. A., & Wang, A. Y. (2001). SNOMED clinical terms: overview of the development process and project status. Proceedings of the AMIA Symposioum, 662--666
[16]
Lipscomb, C.E. (2000). Medical Subject Headings (MeSH). Bulletin of the Medical Libray Association, 88(3), 265--266
[17]
World Health Organization. (1992). The ICD-10 classification of mental and behavioural disorders: clinical descriptions and diagnostic guidelines. World Health Organization.
[18]
Demner-Fushman, D., Kohli, M. D., Rosenman, M. B., Shooshan, S. E., Rodriguez, L., Antani, S., Thoma, G. R., & McDonald, C. J. (2016). Preparing a collection of radiology examinations for distribution and retrieval. Journal Am. Med. Inf. Ass., 23(2), 304--310.
[19]
McCray, A-T., Srinivasan, S., & Browne, A-C. (1994). Lexical methods for managing variation in biomedical terminologies. Proc Annu Symp Comput Appl Med Care, pp 235--239.
[20]
Buendía, F., Gayoso-Cabada, J., Juanes-Méndez, J.A., Sierra, J.L. (2019).Transforming Unstructured Clinical Free-Text Corpora into Reconfigurable Medical Digital Collections. Proc. of the 32th IEEE International nternational Symposium on Computer-Based Medical Systems.
[21]
Goldberg, Y. (2017). Neural Network Methods in Natural Language Processing. Morgan & Claypool Publisher
[22]
Wu, Y et al. (2016). Google's Neural Machine Translation System: Bridging the Gap between Human and Machine Translation. arXiv:1609.08144v2 [cs.CL] 8 Oct 2016
[23]
Salton, G., McGill, M.J. (1986). Introduction to Modern Information Retrieval. McGraw-Hill
[24]
Field, A. (2017). Discovering Statistics Using IBM SPSS Statistics. SAGE Publications Ltd.
[25]
Gayoso-Cabada, J., Gómez-Albarrán, M., & Sierra, J.-L. (2018). Query-Based Versus Resource-Based Cache Strategies in Tag-Based Browsing Systems. In Proceedings of the Maturity and Innovation in Digital Libraries; Dobreva, M., Hinze, A., Žumer, M., Eds.; Springer International Publishing, 41--54.
[26]
Gayoso-Cabada, J., Rodríguez-Cerezo, D., & Sierra, J.-L. (2016). Multilevel Browsing of Folksonomy-Based Digital Collections. In Proceedings of the Web Information Systems Engineering - WISE 2016; Cellary, W., Mokbel, M.F., Wang, J., Wang, H., Zhou, R., Zhang, Y., Eds.; Springer International Publishing, 43--51.
[27]
Gayoso-Cabada, J., Rodríguez-Cerezo, D., & Sierra, J.-L. (2017). Browsing Digital Collections with Reconfigurable Faceted Thesauri. In Proceedings of the Complexity in Information Systems Development; Goluchowski, J., Pankowska, M., Linger, H., Barry, C., Lang, M., Schneider, C., Eds.; Springer International Publishing, 69--86.
[28]
Buendía, F., Gayoso-Cabada, J., Sierra, J.-L. (2018). Using Digital Medical Collections to Support Radiology Training in E-learning Platforms. In Proceedings of the Lifelong Technology-Enhanced Learning; Pammer-Schindler, V., Pérez-Sanagustín, M., Drachsler, H., Elferink, R., Scheffel, M., Eds.; Springer International Publishing, 566--569.
[29]
Buendía, F., Gayoso-Cabada, J., & Sierra, J.-L. (2019). Generation of Standardized E-Learning Content from Digital Medical Collections. Journal of Medical Systems, 43, 188.
Index Terms
- Cataloguing Spanish Medical Reports with UMLS Terms
Recommendations
An Annotation Approach for Radiology Reports Linking Clinical Text and Medical Images with Instructional Purposes
TEEM'20: Eighth International Conference on Technological Ecosystems for Enhancing MulticulturalityClinical annotation is a critical issue in multiple medical disciplines, and particularly within the radiology domain. The current research deals with a broad concept of annotation that can be used when working with the clinical textual descriptions ...
Biomedical text disambiguation using UMLS
ASONAM '13: Proceedings of the 2013 IEEE/ACM International Conference on Advances in Social Networks Analysis and MiningInterest in extracting information from biomedical documents has increased significantly in recent years but has always been challenged by the ambiguity of natural language. An important source of ambiguity is the usage of polysemous words: words with ...
Anaphoric reference in clinical reports
Graphical abstractDisplay Omitted Highlights Annotated 180 clinical reports to indicate anaphor-antecedent pairs. Identity was the most frequent relation, with set/subset and part/whole too. Accurate resolution will require extensive domain knowledge. ...
Comments
Please enable JavaScript to view thecomments powered by Disqus.Information & Contributors
Information
Published In
October 2019
1085 pages
ISBN:9781450371919
DOI:10.1145/3362789
Copyright © 2019 ACM.
Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than the author(s) must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected].
In-Cooperation
- University of Salamanca: University of Salamanca
Publisher
Association for Computing Machinery
New York, NY, United States
Publication History
Published: 16 October 2019
Check for updates
Author Tags
Qualifiers
- Research-article
- Research
- Refereed limited
Conference
TEEM'19
Acceptance Rates
Overall Acceptance Rate 496 of 705 submissions, 70%
Contributors
Other Metrics
Bibliometrics & Citations
Bibliometrics
Article Metrics
- View Citations1Total Citations
- 46Total Downloads
- Downloads (Last 12 months)3
- Downloads (Last 6 weeks)1
Reflects downloads up to 10 Nov 2024
Other Metrics
Citations
Cited By
View all- Jing X(2020)UMLS at 30 years: How it is used and published (Preprint)JMIR Medical Informatics10.2196/20675Online publication date: 25-May-2020
View Options
Get Access
Login options
Check if you have access through your login credentials or your institution to get full access on this article.
Sign in