An updated, computable MEDication-Indication resource for biomedical research

Abstract The MEDication-Indication (MEDI) knowledgebase has been utilized in research with electronic health records (EHRs) since its publication in 2013. To account for new drugs and terminology updates, we rebuilt MEDI to overhaul the knowledgebase for modern EHRs. Indications for prescribable med...

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Autores principales:	Neil S. Zheng, V. Eric Kerchberger, Victor A. Borza, H. Nur Eken, Joshua C. Smith, Wei-Qi Wei
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/c94dcdf504b34988a12deb0dcb3d3275
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spelling	oai:doaj.org-article:c94dcdf504b34988a12deb0dcb3d32752021-12-02T17:27:19ZAn updated, computable MEDication-Indication resource for biomedical research10.1038/s41598-021-98579-42045-2322https://doaj.org/article/c94dcdf504b34988a12deb0dcb3d32752021-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-98579-4https://doaj.org/toc/2045-2322Abstract The MEDication-Indication (MEDI) knowledgebase has been utilized in research with electronic health records (EHRs) since its publication in 2013. To account for new drugs and terminology updates, we rebuilt MEDI to overhaul the knowledgebase for modern EHRs. Indications for prescribable medications were extracted using natural language processing and ontology relationships from six publicly available resources: RxNorm, Side Effect Resource 4.1, Mayo Clinic, WebMD, MedlinePlus, and Wikipedia. We compared the estimated precision and recall between the previous MEDI (MEDI-1) and the updated version (MEDI-2) with manual review. MEDI-2 contains 3031 medications and 186,064 indications. The MEDI-2 high precision subset (HPS) includes indications found within RxNorm or at least three other resources. MEDI-2 and MEDI-2 HPS contain 13% more medications and over triple the indications compared to MEDI-1 and MEDI-1 HPS, respectively. Manual review showed MEDI-2 achieves the same precision (0.60) with better recall (0.89 vs. 0.79) compared to MEDI-1. Likewise, MEDI-2 HPS had the same precision (0.92) and improved recall (0.65 vs. 0.55) than MEDI-1 HPS. The combination of MEDI-1 and MEDI-2 achieved a recall of 0.95. In updating MEDI, we present a more comprehensive medication-indication knowledgebase that can continue to facilitate applications and research with EHRs.Neil S. ZhengV. Eric KerchbergerVictor A. BorzaH. Nur EkenJoshua C. SmithWei-Qi WeiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-9 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Neil S. Zheng V. Eric Kerchberger Victor A. Borza H. Nur Eken Joshua C. Smith Wei-Qi Wei An updated, computable MEDication-Indication resource for biomedical research
description	Abstract The MEDication-Indication (MEDI) knowledgebase has been utilized in research with electronic health records (EHRs) since its publication in 2013. To account for new drugs and terminology updates, we rebuilt MEDI to overhaul the knowledgebase for modern EHRs. Indications for prescribable medications were extracted using natural language processing and ontology relationships from six publicly available resources: RxNorm, Side Effect Resource 4.1, Mayo Clinic, WebMD, MedlinePlus, and Wikipedia. We compared the estimated precision and recall between the previous MEDI (MEDI-1) and the updated version (MEDI-2) with manual review. MEDI-2 contains 3031 medications and 186,064 indications. The MEDI-2 high precision subset (HPS) includes indications found within RxNorm or at least three other resources. MEDI-2 and MEDI-2 HPS contain 13% more medications and over triple the indications compared to MEDI-1 and MEDI-1 HPS, respectively. Manual review showed MEDI-2 achieves the same precision (0.60) with better recall (0.89 vs. 0.79) compared to MEDI-1. Likewise, MEDI-2 HPS had the same precision (0.92) and improved recall (0.65 vs. 0.55) than MEDI-1 HPS. The combination of MEDI-1 and MEDI-2 achieved a recall of 0.95. In updating MEDI, we present a more comprehensive medication-indication knowledgebase that can continue to facilitate applications and research with EHRs.
format	article
author	Neil S. Zheng V. Eric Kerchberger Victor A. Borza H. Nur Eken Joshua C. Smith Wei-Qi Wei
author_facet	Neil S. Zheng V. Eric Kerchberger Victor A. Borza H. Nur Eken Joshua C. Smith Wei-Qi Wei
author_sort	Neil S. Zheng
title	An updated, computable MEDication-Indication resource for biomedical research
title_short	An updated, computable MEDication-Indication resource for biomedical research
title_full	An updated, computable MEDication-Indication resource for biomedical research
title_fullStr	An updated, computable MEDication-Indication resource for biomedical research
title_full_unstemmed	An updated, computable MEDication-Indication resource for biomedical research
title_sort	updated, computable medication-indication resource for biomedical research
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/c94dcdf504b34988a12deb0dcb3d3275
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An updated, computable MEDication-Indication resource for biomedical research

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