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DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations

The effective extraction of ranked disease-symptom relationships is a critical component in various medical tasks, including computer-assisted medical diagnosis or the discovery of unexpected associations between diseases. While existing disease-symptom relationship extraction methods are used as th...

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Detalles Bibliográficos
Autores principales: Zlabinger, Markus, Hofstätter, Sebastian, Rekabsaz, Navid, Hanbury, Allan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7148057/
http://dx.doi.org/10.1007/978-3-030-45442-5_54
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author Zlabinger, Markus
Hofstätter, Sebastian
Rekabsaz, Navid
Hanbury, Allan
author_facet Zlabinger, Markus
Hofstätter, Sebastian
Rekabsaz, Navid
Hanbury, Allan
author_sort Zlabinger, Markus
collection PubMed
description The effective extraction of ranked disease-symptom relationships is a critical component in various medical tasks, including computer-assisted medical diagnosis or the discovery of unexpected associations between diseases. While existing disease-symptom relationship extraction methods are used as the foundation in the various medical tasks, no collection is available to systematically evaluate the performance of such methods. In this paper, we introduce the Disease-Symptom Relation Collection (dsr-collection), created by five physicians as expert annotators. We provide graded symptom judgments for diseases by differentiating between relevant symptoms and primary symptoms. Further, we provide several strong baselines, based on the methods used in previous studies. The first method is based on word embeddings, and the second on co-occurrences of MeSH-keywords of medical articles. For the co-occurrence method, we propose an adaption in which not only keywords are considered, but also the full text of medical articles. The evaluation on the dsr-collection shows the effectiveness of the proposed adaption in terms of nDCG, precision, and recall.
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spelling pubmed-71480572020-04-13 DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations Zlabinger, Markus Hofstätter, Sebastian Rekabsaz, Navid Hanbury, Allan Advances in Information Retrieval Article The effective extraction of ranked disease-symptom relationships is a critical component in various medical tasks, including computer-assisted medical diagnosis or the discovery of unexpected associations between diseases. While existing disease-symptom relationship extraction methods are used as the foundation in the various medical tasks, no collection is available to systematically evaluate the performance of such methods. In this paper, we introduce the Disease-Symptom Relation Collection (dsr-collection), created by five physicians as expert annotators. We provide graded symptom judgments for diseases by differentiating between relevant symptoms and primary symptoms. Further, we provide several strong baselines, based on the methods used in previous studies. The first method is based on word embeddings, and the second on co-occurrences of MeSH-keywords of medical articles. For the co-occurrence method, we propose an adaption in which not only keywords are considered, but also the full text of medical articles. The evaluation on the dsr-collection shows the effectiveness of the proposed adaption in terms of nDCG, precision, and recall. 2020-03-24 /pmc/articles/PMC7148057/ http://dx.doi.org/10.1007/978-3-030-45442-5_54 Text en © Springer Nature Switzerland AG 2020 This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Article
Zlabinger, Markus
Hofstätter, Sebastian
Rekabsaz, Navid
Hanbury, Allan
DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations
title DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations
title_full DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations
title_fullStr DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations
title_full_unstemmed DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations
title_short DSR: A Collection for the Evaluation of Graded Disease-Symptom Relations
title_sort dsr: a collection for the evaluation of graded disease-symptom relations
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7148057/
http://dx.doi.org/10.1007/978-3-030-45442-5_54
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