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Executing Complexity-Increasing Queries in Relational (MySQL) and NoSQL (MongoDB and EXist) Size-Growing ISO/EN 13606 Standardized EHR Databases
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Executing Complexity-Increasing Queries in Relational (MySQL) and NoSQL (MongoDB and EXist) Size-Growing ISO/EN 13606 Standardized EHR Databases

Published on: March 19, 2018

Automated database mediation using ontological metadata mappings.

Luis Marenco1, Rixin Wang, Prakash Nadkarni

  • 1Center for Medical Informatics, Yale University School of Medicine, PO Box 208009, New Haven, CT 06520-8009, USA. luis.marenco@yale.edu

Journal of the American Medical Informatics Association : JAMIA
|July 2, 2009
PubMed
Summary
This summary is machine-generated.

This study presents an automated method for integrating federated database information using ontologies. The OntoMediator system handles varying data granularities, simplifying cross-database queries and data curation.

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Last Updated: Jun 22, 2026

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Cloud-Based Phrase Mining and Analysis of User-Defined Phrase-Category Association in Biomedical Publications

Published on: February 23, 2019

Area of Science:

  • Database integration
  • Ontology engineering
  • Information retrieval

Background:

  • Federated databases present challenges due to varying data representation granularity.
  • This issue is comparable to managing precoordinated and postcoordinated concepts in biomedical ontologies.

Purpose of the Study:

  • To develop an automated approach for integrating federated database information.
  • To construct database ontologies from extended metadata for enhanced data integration.

Main Methods:

  • An approach using ontological metadata mapping rules with a global vocabulary.
  • Implementation in OntoMediator, a component of the Query Integrator System.
  • Demonstration with a query across three interoperating databases and an example using SNOMED.

Main Results:

  • OntoMediator enables queries across databases with different granularities.
  • The system supports constraint enforcement to prevent inappropriate user actions.
  • A rule-based framework simplifies mapping and maintenance for cross-database querying and vocabulary curation.

Conclusions:

  • A rule-based framework streamlines the design and maintenance of data mapping systems.
  • This approach facilitates cross-database querying and the curation of compositional controlled vocabularies.