| The TOKEn project: knowledge synthesis for in silico science. | |
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MedLine Citation:
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PMID: 21984589 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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OBJECTIVE: The conduct of investigational studies that involve large-scale data sets presents significant challenges related to the discovery and testing of novel hypotheses capable of supporting in silico discovery science. The use of what are known as Conceptual Knowledge Discovery in Databases (CKDD) methods provides a potential means of scaling hypothesis discovery and testing approaches for large data sets. Such methods enable the high-throughput generation and evaluation of knowledge-anchored relationships between complexes of variables found in targeted data sets. METHODS: The authors have conducted a multipart model formulation and validation process, focusing on the development of a methodological and technical approach to using CKDD to support hypothesis discovery for in silico science. The model the authors have developed is known as the Translational Ontology-anchored Knowledge Discovery Engine (TOKEn). This model utilizes a specific CKDD approach known as Constructive Induction to identify and prioritize potential hypotheses related to the meaningful semantic relationships between variables found in large-scale and heterogeneous biomedical data sets. RESULTS: The authors have verified and validated TOKEn in the context of a translational research data repository maintained by the NCI-funded Chronic Lymphocytic Leukemia Research Consortium. Such studies have shown that TOKEn is: (1) computationally tractable; and (2) able to generate valid and potentially useful hypotheses concerning relationships between phenotypic and biomolecular variables in that data collection. CONCLUSIONS: The TOKEn model represents a potentially useful and systematic approach to knowledge synthesis for in silico discovery science in the context of large-scale and multidimensional research data sets. |
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Authors:
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Philip R O Payne; Tara B Borlawsky; Omkar Lele; Stephen James; Andrew W Greaves |
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Publication Detail:
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Type: Journal Article; Research Support, N.I.H., Extramural Date: 2011-10-07 |
Journal Detail:
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Title: Journal of the American Medical Informatics Association : JAMIA Volume: 18 Suppl 1 ISSN: 1527-974X ISO Abbreviation: J Am Med Inform Assoc Publication Date: 2011 Dec |
Date Detail:
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Created Date: 2011-12-19 Completed Date: 2012-08-24 Revised Date: 2013-02-19 |
Medline Journal Info:
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Nlm Unique ID: 9430800 Medline TA: J Am Med Inform Assoc Country: United States |
Other Details:
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Languages: eng Pagination: i125-31 Citation Subset: IM |
Affiliation:
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Department of Biomedical Informatics, The Ohio State University, Columbus, Ohio 43210, USA. philip.payne@osumc.edu |
Export Citation:
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| MeSH Terms | |
Descriptor/Qualifier:
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Algorithms Artificial Intelligence* Databases as Topic* Information Storage and Retrieval Internet Models, Theoretical* |
| Grant Support | |
ID/Acronym/Agency:
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1U54RR024384-01A1/RR/NCRR NIH HHS; R01CA134232/CA/NCI NIH HHS; R01LM010119/LM/NLM NIH HHS; UL1 RR025755/RR/NCRR NIH HHS |
| Comments/Corrections | |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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