AIMC Topic: Semantics
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Biomedical question answering using semantic relations.
BMC bioinformatics
Jan 16, 2015
BACKGROUND: The proliferation of the scientific literature in the field of biomedicine makes it difficult to keep abreast of current knowledge, even for domain experts. While general Web search engines and specialized information retrieval (IR) syste...
Ontology-based data integration between clinical and research systems.
PloS one
Jan 14, 2015
Data from the electronic medical record comprise numerous structured but uncoded elements, which are not linked to standard terminologies. Reuse of such data for secondary research purposes has gained in importance recently. However, the identificati...
Embedding assisted prediction architecture for event trigger identification.
Journal of bioinformatics and computational biology
Jan 11, 2015
Molecular events normally have significant meanings since they describe important biological interactions or alternations such as binding of a protein. As a crucial step of biological event extraction, event trigger identification has attracted much ...
Semantic similarity measurement between gene ontology terms based on exclusively inherited shared information.
Gene
Dec 28, 2014
Quantifying the semantic similarities between pairs of terms in the Gene Ontology (GO) structure can help to explore the functional relationships between biological entities. A common approach to this problem is to measure the information they have i...
Exploiting Semantic Web Technologies to Develop OWL-Based Clinical Practice Guideline Execution Engines.
IEEE journal of biomedical and health informatics
Dec 18, 2014
Computerizing paper-based CPG and then executing them can provide evidence-informed decision support to physicians at the point of care. Semantic web technologies especially web ontology language (OWL) ontologies have been profusely used to represent...
A neural network for learning the meaning of objects and words from a featural representation.
Neural networks : the official journal of the International Neural Network Society
Dec 16, 2014
The present work investigates how complex semantics can be extracted from the statistics of input features, using an attractor neural network. The study is focused on how feature dominance and feature distinctiveness can be naturally coded using Hebb...
Evaluating semantic similarity and relatedness over the semantic grouping of clinical term pairs.
Journal of biomedical informatics
Dec 15, 2014
INTRODUCTION: This article explores how measures of semantic similarity and relatedness are impacted by the semantic groups to which the concepts they are measuring belong. Our goal is to determine if there are distinctions between homogeneous compar...
Recognizing lexical and semantic change patterns in evolving life science ontologies to inform mapping adaptation.
Artificial intelligence in medicine
Dec 6, 2014
BACKGROUND: Mappings established between life science ontologies require significant efforts to maintain them up to date due to the size and frequent evolution of these ontologies. In consequence, automatic methods for applying modifications on mappi...
DOSE: an R/Bioconductor package for disease ontology semantic and enrichment analysis.
Bioinformatics (Oxford, England)
Oct 17, 2014
SUMMARY: Disease ontology (DO) annotates human genes in the context of disease. DO is important annotation in translating molecular findings from high-throughput data to clinical relevance. DOSE is an R package providing semantic similarity computati...
RGFinder: a system for determining semantically related genes using GO graph minimum spanning tree.
IEEE transactions on nanobioscience
Oct 16, 2014
Biologists often need to know the set S' of genes that are the most functionally and semantically related to a given set S of genes. For determining the set S', most current gene similarity measures overlook the structural dependencies among the Gene...
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