AIMC Topic: Vocabulary, Controlled
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Expanding a radiology lexicon using contextual patterns in radiology reports.
Journal of the American Medical Informatics Association : JAMIA
Jun 1, 2018
OBJECTIVE: Distributional semantics algorithms, which learn vector space representations of words and phrases from large corpora, identify related terms based on contextual usage patterns. We hypothesize that distributional semantics can speed up lex...
Matching Ontologies to HL7 FHIR Towards Their Syntactic and Semantic Similarity.
Studies in health technology and informatics
Jan 1, 2018
Current medical systems need to be able to communicate complex and detailed medical data securely and efficiently. However, the quantity of available healthcare data is rising rapidly, far exceeding the capacity to deliver personal or public health b...
MetaSRA: normalized human sample-specific metadata for the Sequence Read Archive.
Bioinformatics (Oxford, England)
Sep 15, 2017
MOTIVATION: The NCBI's Sequence Read Archive (SRA) promises great biological insight if one could analyze the data in the aggregate; however, the data remain largely underutilized, in part, due to the poor structure of the metadata associated with ea...
MetaMap Lite in Excel: Biomedical Named-Entity Recognition for Non-Technical Users.
Studies in health technology and informatics
Jan 1, 2017
We developed an easy-to-use tool for non-technical biomedical researchers to conduct Named-Entity Recognition (NER) on biomedical text, in a familiar spreadsheet environment. The system is a simple, offline, easy to install, end-user front-end to the...
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 ...
Technical Environment for Developing the SNIK Ontology of Information Management in Hospitals.
Studies in health technology and informatics
Jan 1, 2017
The SNIK project converts textbooks about information management in hospitals to a domain ontology that provides a shared vocabulary for institutions to model and integrate processes, data and infrastructure. To accommodate user groups with different...
Semantic Technologies for Re-Use of Clinical Routine Data.
Studies in health technology and informatics
Jan 1, 2017
Routine patient data in electronic patient records are only partly structured, and an even smaller segment is coded, mainly for administrative purposes. Large parts are only available as free text. Transforming this content into a structured and sema...
Improving Terminology Mapping in Clinical Text with Context-Sensitive Spelling Correction.
Studies in health technology and informatics
Jan 1, 2017
The mapping of unstructured clinical text to an ontology facilitates meaningful secondary use of health records but is non-trivial due to lexical variation and the abundance of misspellings in hurriedly produced notes. Here, we apply several spelling...
Evaluation of the Terminology Coverage in the French Corpus LiSSa.
Studies in health technology and informatics
Jan 1, 2017
Extracting concepts from medical texts is a key to support many advanced applications in medical information retrieval. Entity recognition in French texts is moreover challenged by the availability of many resources originally developed for English t...
Better living through ontologies at the Immune Epitope Database.
Database : the journal of biological databases and curation
Jan 1, 2017
UNLABELLED: The Immune Epitope Database (IEDB) project incorporates independently developed ontologies and controlled vocabularies into its curation and search interface. This simplifies curation practices, improves the user query experience and faci...
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