- Recent Progresses in the Linguistic Modeling of Biological Sequences Based on Formal Language Theory
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Park HS, Galbadrakh B, Kim YM
- KMID: 1450880
- Genomics Inform.
- 2011 Mar;9(1):5-11.
Treating genomes just as languages raises the possibility of producing concise generalizations about information in biological sequences. Grammars used in this way would constitute a model of underlying biological processes... -
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- Design and Construction of a NLP Based Knowledge Extraction Methodology in the Medical Domain Applied to Clinical Information
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Cedeño Moreno D, Vargas-Lombardo M
- KMID: 2434553
- Healthc Inform Res.
- 2018 Oct;24(4):376-380.
- doi: 10.4258/hir.2018.24.4.376
OBJECTIVES: This research presents the design and development of a software architecture using natural language processing tools and the use of an ontology of knowledge as a knowledge base. METHODS: The... -
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- Text Mining in Biomedical Domain with Emphasis on Document Clustering
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Renganathan V
- KMID: 2403303
- Healthc Inform Res.
- 2017 Jul;23(3):141-146.
- doi: 10.4258/hir.2017.23.3.141
OBJECTIVES: With the exponential increase in the number of articles published every year in the biomedical domain, there is a need to build automated systems to extract unknown information from... -
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- PubMiner: Machine Learning-based Text Mining for Biomedical Information Analysis
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Eom JH, Zhang BT
- KMID: 2166172
- Genomics Inform.
- 2004 Jun;2(2):99-106.
In this paper we introduce PubMiner, an intelligent machine learning based text mining system for mining biological information from the literature. PubMiner employs natural language processing techniques and machine learning... -
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- Resources for assigning MeSH IDs to Japanese medical terms
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Tateisi Y
- KMID: 2462026
- Genomics Inform.
- 2019 Jun;17(2):e16.
- doi: 10.5808/GI.2019.17.2.e16
Medical Subject Headings (MeSH), a medical thesaurus created by the National Library of Medicine (NLM), is a useful resource for natural language processing (NLP). In this article, the current status... -
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- Developing JSequitur to Study the Hierarchical Structure of Biological Sequences in a Grammatical Inference Framework of String Compression Algorithms
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Galbadrakh B, Lee KE, Park HS
- KMID: 2053308
- Genomics Inform.
- 2012 Dec;10(4):266-270.
- doi: 10.5808/GI.2012.10.4.266
Grammatical inference methods are expected to find grammatical structures hidden in biological sequences. One hopes that studies of grammar serve as an appropriate tool for theory formation. Thus, we have... -
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- Toward the Automatic Generation of the Entry Level CDA Documents
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Jung S, Kim S, Yoo S, Choi J
- KMID: 2357301
- J Korean Soc Med Inform.
- 2009 Mar;15(1):141-151.
OBJECTIVE: CDA (Clinical Document Architecture) is a markup standard for clinical document exchange. In order to increase the semantic interoperability of documents exchange, the clinical statements in the narrative blocks... -
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- Improving spaCy dependency annotation and PoS tagging web service using independent NER services
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Colic N, Rinaldi F
- KMID: 2462031
- Genomics Inform.
- 2019 Jun;17(2):e21.
- doi: 10.5808/GI.2019.17.2.e21
Dependency parsing is often used as a component in many text analysis pipelines. However, performance, especially in specialized domains, suffers from the presence of complex terminology. Our hypothesis is that... -
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- GNI Corpus Version 1.0: Annotated Full-Text Corpus of Genomics & Informatics to Support Biomedical Information Extraction
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Oh SY, Kim JH, Kim SJ, Nam HJ, Park HS
- KMID: 2422816
- Genomics Inform.
- 2018 Sep;16(3):75-77.
- doi: 10.5808/GI.2018.16.3.75
Genomics & Informatics (NLM title abbreviation: Genomics Inform) is the official journal of the Korea Genome Organization. Text corpus for this journal annotated with various levels of linguistic information would... -
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- PharmacoNER Tagger: a deep learning-based tool for automatically finding chemicals and drugs in Spanish medical texts
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Armengol-Estapé J, Soares F, Marimon M, Krallinger M
- KMID: 2462025
- Genomics Inform.
- 2019 Jun;17(2):e15.
- doi: 10.5808/GI.2019.17.2.e15
Automatically detecting mentions of pharmaceutical drugs and chemical substances is key for the subsequent extraction of relations of chemicals with other biomedical entities such as genes, proteins, diseases, adverse reactions... -
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- Towards cross-platform interoperability for machine-assisted text annotation
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Eckart de Castilho R, Ide N, Kim JD, Klie JC, Suderman K
- KMID: 2462029
- Genomics Inform.
- 2019 Jun;17(2):e19.
- doi: 10.5808/GI.2019.17.2.e19
In this paper, we investigate cross-platform interoperability for natural language processing (NLP) and, in particular, annotation of textual resources, with an eye toward identifying the design elements of annotation models... -
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- MediScore: MEDLINE-based Interactive Scoring of Gene and Disease Associations
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Cho HY, Oh B, Lee JK, Kimm K, Koh I
- KMID: 2053079
- Genomics Inform.
- 2004 Sep;2(3):131-133.
MediScore is an information retrieval system, which helps to search for the set of genes associated with a specific disease or the set of diseases associated with a specific gene.... -
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- A Comparative Study on the 'Sign or Symptom' Concepts of the UMLS(Unified Medical Language System) and Clinical Terms in Korean Medical Records
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Han SB, Choi JW
- KMID: 2330050
- J Korean Soc Med Inform.
- 2001 Dec;7(4):1-10.
The UMLS is a long-term NLM research and development effort designed to facilitate the retrieval and integration of information from multiple machine-readable biomedical information sources. It is one of the... -
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- Health Information Technology Trends in Social Media: Using Twitter Data
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Lee J, Kim J, Hong YJ, Piao M, Byun A, Song H, Lee HS
- KMID: 2445006
- Healthc Inform Res.
- 2019 Apr;25(2):99-105.
- doi: 10.4258/hir.2019.25.2.99
OBJECTIVES: This study analyzed the health technology trends and sentiments of users using Twitter data in an attempt to examine the public's opinions and identify their needs. METHODS: Twitter data related... -
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- Sentiment Analysis of the Quotations of Intensive Care Unit Survivors in Qualitative Studies
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Kang J
- KMID: 2407167
- J Korean Crit Care Nurs.
- 2018 Feb;11(1):1-14.
- doi: 10.0000/jkccn.2018.11.1.1
PURPOSE: As the intensive care unit (ICU) survival rate increases, interest in the lives of ICU survivors has also been increasing. The purpose of this study was to identify the... -
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- OryzaGP: rice gene and protein dataset for named-entity recognition
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Larmande P, Do H, Wang Y
- KMID: 2462027
- Genomics Inform.
- 2019 Jun;17(2):e17.
- doi: 10.5808/GI.2019.17.2.e17
Text mining has become an important research method in biology, with its original purpose to extract biological entities, such as genes, proteins and phenotypic traits, to extend knowledge from scientific... -
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- Korean Anaphora Recognition System to Develop Healthcare Dialogue-Type Agent
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Yang J, Lee Y
- KMID: 2166802
- Healthc Inform Res.
- 2014 Oct;20(4):272-279.
- doi: 10.4258/hir.2014.20.4.272
OBJECTIVES: Anaphora recognition is a process to identify exactly which noun has been used previously and relates to a pronoun that is included in a specific sentence later. Therefore, anaphora... -
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- Challenges and Practical Approaches with Word Sense Disambiguation of Acronyms and Abbreviations in the Clinical Domain
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Moon S, McInnes B, Melton GB
- KMID: 2284596
- Healthc Inform Res.
- 2015 Jan;21(1):35-42.
- doi: 10.4258/hir.2015.21.1.35
OBJECTIVES: Although acronyms and abbreviations in clinical text are used widely on a daily basis, relatively little research has focused upon word sense disambiguation (WSD) of acronyms and abbreviations in... -
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- Machine Learning-Based Prediction of Korean Triage and Acuity Scale Level in Emergency Department Patients
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Choi SW, Ko T, Hong KJ, Kim KH
- KMID: 2462229
- Healthc Inform Res.
- 2019 Oct;25(4):305-312.
- doi: 10.4258/hir.2019.25.4.305
OBJECTIVES: Triage is a process to accurately assess and classify symptoms to identify and provide rapid treatment to patients. The Korean Triage and Acuity Scale (KTAS) is used as a... -
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- Temporal Segmentation for Capturing Snapshots of Patient Histories in Korean Clinical Narrative
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Lee W, Choi J
- KMID: 2418168
- Healthc Inform Res.
- 2018 Jul;24(3):179-186.
- doi: 10.4258/hir.2018.24.3.179
OBJECTIVES: Clinical discharge summaries provide valuable information about patients' clinical history, which is helpful for the realization of intelligent healthcare applications. The documents tend to take the form of separate... -
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