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“…RESULTS: We decoupled data annotation from ontology development by creating an Ontology Request Broker (ORB) within Phenex. …”
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“…METHODS: G-Bean addresses PubMed's limitations with three innovations: (1) Parallel document index creation: a multithreaded index creation strategy is employed to generate the document index for G-Bean in parallel; (2) Ontology-graph based query expansion: an ontology graph is constructed by merging four major UMLS (Version 2013AA) vocabularies, MeSH, SNOMEDCT, CSP and AOD, to cover all concepts in National Library of Medicine (NLM) database; a Personalized PageRank algorithm is used to compute concept relevance in this ontology graph and the Term Frequency - Inverse Document Frequency (TF-IDF) weighting scheme is used to re-rank the concepts. …”
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“…The cell type ontology, CL, describes normal cell types and was not designed to capture the pathology of cancer cells. …”
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“…Then environmental effects ontology to describe environmental effects domain knowledge is designed. …”
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“…BACKGROUND: We develop medical-specialty specific ontologies that contain the settled science and common term usage. …”
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“…BACKGROUND: Biological ontologies are continually growing and improving from requests for new classes (terms) by biocurators. …”
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“…Therefore, we developed ENVIRONMENTS, a fast dictionary-based tagger capable of identifying Environment Ontology (ENVO) terms in text. We evaluate the accuracy of the tagger on a new manually curated corpus of 600 Encyclopedia of Life (EOL) species pages. …”
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“…The Gene Ontology is designed to be applicable to all organisms but up to now has been largely under-utilized for prokaryotes and viruses, in part because of a lack of appropriate ontology terms. …”
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“…CONCLUSION: The empirical study shows that the semantic similarity between GO terms and the ontology hierarchy play important roles in predicting protein function. …”
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“…In this paper we describe KneeTex, an information extraction system that operates in this domain. METHODS: As an ontology–driven information extraction system, KneeTex makes active use of an ontology to strongly guide and constrain text analysis. …”
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“…METHODS: The Parkinson’s disease ontology was built according to the life cycle of ontology building. …”
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“…RESULTS: In this work, we present a generic, ontology-driven framework to infer, visualise and analyse an arbitrary set of condition-specific responses against one reference network. …”
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“…The human phenotype ontology (HPO) was recently developed as a standardized vocabulary for describing the phenotype abnormalities associated with human diseases. …”
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“…METHODS: We have developed an ontology that describes exergames using the Web Ontology Language (OWL); it is available at http://purl.org/net/exergame/ns#. …”
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“…In this study, we report a Vaccination Informed Consent Ontology (VICO) that extends the Informed Consent Ontology and integrates related OBO foundry ontologies, such as the Vaccine Ontology, with a focus on vaccination screening questionnaire in the vaccination informed consent domain. …”
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“…The model was formalized as an ontology using the web ontology language. The ontology was then evaluated for its comprehensiveness and applicability in building predictive models. …”
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“…ODNAE imports related drugs from the Drug Ontology (DrON) with their chemical ingredients defined in ChEBI. …”
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“…The transformation of the data is based on the mappings between the entities of the data schema and the ontological infrastructure that provides the meaning to the content. …”
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“…BACKGROUND: The Gene Ontology (GO) is a dynamic, controlled vocabulary that describes the cellular function of genes and proteins according to tree major categories: biological process, molecular function and cellular component. …”
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