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Unified Medical Language System

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Extracting medications and associated adverse drug events using a natural language processing system combining knowledge base and deep learning.

Journal of the American Medical Informatics Association : JAMIA Jan 1, 2020
OBJECTIVE: Detecting adverse drug events (ADEs) and medications related information in clinical notes is important for both hospital medical care and medical research. We describe our clinical natural language processing (NLP) system to automatically...
Neural Networks, Computer Electronic Health Records Deep Learning Humans Knowledge Bases Information Storage and Retrieval Unified Medical Language System Narration Natural Language Processing Drug-Related Side Effects and Adverse Reactions
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High-throughput multimodal automated phenotyping (MAP) with application to PheWAS.

Journal of the American Medical Informatics Association : JAMIA Nov 1, 2019
OBJECTIVE: Electronic health records linked with biorepositories are a powerful platform for translational studies. A major bottleneck exists in the ability to phenotype patients accurately and efficiently. The objective of this study was to develop ...
Electronic Health Records Polymorphism, Single Nucleotide Natural Language Processing Humans Algorithms Phenotype Unified Medical Language System Area Under Curve International Classification of Diseases
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Development and application of a high throughput natural language processing architecture to convert all clinical documents in a clinical data warehouse into standardized medical vocabularies.

Journal of the American Medical Informatics Association : JAMIA Nov 1, 2019
OBJECTIVE: Natural language processing (NLP) engines such as the clinical Text Analysis and Knowledge Extraction System are a solution for processing notes for research, but optimizing their performance for a clinical data warehouse remains a challen...
Vocabulary, Controlled Electronic Health Records Natural Language Processing Data Mining Patient Readmission Humans Unified Medical Language System Machine Learning
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deepBioWSD: effective deep neural word sense disambiguation of biomedical text data.

Journal of the American Medical Informatics Association : JAMIA May 1, 2019
OBJECTIVE: In biomedicine, there is a wealth of information hidden in unstructured narratives such as research articles and clinical reports. To exploit these data properly, a word sense disambiguation (WSD) algorithm prevents downstream difficulties...
Medical Subject Headings Unified Medical Language System Vocabulary, Controlled Systematized Nomenclature of Medicine Biological Ontologies Algorithms Deep Learning Natural Language Processing Data Mining Datasets as Topic Neural Networks, Computer
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Automatic Human-like Mining and Constructing Reliable Genetic Association Database with Deep Reinforcement Learning.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing Jan 1, 2019
The increasing amount of scientific literature in biological and biomedical science research has created a challenge in continuous and reliable curation of the latest knowledge discovered, and automatic biomedical text-mining has been one of the answ...
Markov Chains Unified Medical Language System Knowledge Bases Data Mining Reproducibility of Results Deep Learning Genetic Association Studies Humans Computational Biology Algorithms Databases, Genetic Decision Support Techniques PubMed
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UMLS to DBPedia link discovery through circular resolution.

Journal of the American Medical Informatics Association : JAMIA Jul 1, 2018
OBJECTIVE: The goal of this work is to map Unified Medical Language System (UMLS) concepts to DBpedia resources using widely accepted ontology relations from the Simple Knowledge Organization System (skos:exactMatch, skos:closeMatch) and from the Res...
Knowledge Bases Datasets as Topic Unified Medical Language System Vocabulary, Controlled Cloud Computing Algorithms Semantic Web Medical Informatics Applications
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MetaMap Lite: an evaluation of a new Java implementation of MetaMap.

Journal of the American Medical Informatics Association : JAMIA Jul 1, 2017
MetaMap is a widely used named entity recognition tool that identifies concepts from the Unified Medical Language System Metathesaurus in text. This study presents MetaMap Lite, an implementation of some of the basic MetaMap functions in Java. On sev...
Information Storage and Retrieval Algorithms Software Natural Language Processing Unified Medical Language System
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Feasibility and Utility of Lexical Analysis for Occupational Health Text.

Journal of occupational and environmental medicine Jun 1, 2017
OBJECTIVE: Assess feasibility and potential utility of natural language processing (NLP) for storing and analyzing occupational health data.
Natural Language Processing Feasibility Studies Data Mining Humans Occupational Exposure Mining Occupational Injuries Occupational Health Terminology as Topic Unified Medical Language System
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Enhanced LexSynonym Acquisition for Effective UMLS Concept Mapping.

Studies in health technology and informatics Jan 1, 2017
Concept mapping is important in natural language processing (NLP) for bioinformatics. The UMLS Metathesaurus provides a rich synonym thesaurus and is a popular resource for concept mapping. Query expansion using synonyms for subterm substitutions is ...
Unified Medical Language System Vocabulary, Controlled Natural Language Processing Semantics
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Developing Methodologies to Find Abbreviated Laboratory Test Names in Narrative Clinical Documents by Generating High Quality Q-Grams.

Studies in health technology and informatics Jan 1, 2017
Laboratory test names are used as basic information to diagnose diseases. However, this kind of medical information is usually written in a natural language. To find this information, lexicon based methods have been good solutions but they cannot fin...
Algorithms Humans Narration Language Natural Language Processing Unified Medical Language System
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