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Related Experiment Video

Updated: May 15, 2026

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems

Published on: June 13, 2025

Ontology-based federated data access to human studies information.

Ida Sim¹, Simona Carini, Samson W Tu

¹University of California, San Francisco, CA, USA.

AMIA ... Annual Symposium Proceedings. AMIA Symposium

|January 11, 2013

Summary

This study introduces a new informatics infrastructure for federated querying of human studies data. It enables large-scale analysis to advance evidence-based medicine by integrating dispersed biomedical research information.

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Last Updated: May 15, 2026

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems

Evidence-based Knowledge Synthesis and Hypothesis Validation: Navigating Biomedical Knowledge Bases via Explainable AI and Agentic Systems

Published on: June 13, 2025

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Navigating MARRVEL, a Web-Based Tool that Integrates Human Genomics and Model Organism Genetics Information

Published on: August 15, 2019

Area of Science:

Biomedical Informatics
Clinical Research Data Management

Background:

Human studies data is fragmented across siloed systems, hindering large-scale analysis.
Evidence-based medicine requires integrated access to diverse human studies data.

Purpose of the Study:

To develop an informatics infrastructure for federated querying of human studies databases.
To enable ontology-based data access for improved data integration and analysis.

Main Methods:

Developed the Ontology of Clinical Research (OCRe) for reference semantics.
Created an XSD data model derived from OCRe for semantic synchrony and XML data acquisition.
Implemented a Query Integrator for distributed querying across data, OCRe, and external ontologies (e.g., SNOMED).

Main Results:

Demonstrated the informatics infrastructure using data from institutional systems.
Successfully integrated and queried data from ClinicalTrials.gov.

Conclusions:

The developed infrastructure facilitates federated data access for human studies.
This approach supports large-scale data analysis crucial for evidence-based medicine.