Use of Standard Common Data Elements (CDEs) in CEDAR

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Mark Musen


Stanford University

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U54 AI117925


Mark Musen

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Abstract Title

Use of Standard Common Data Elements (CDEs) in CEDAR

Abstract Description

The Center for Data Annotation and Retrieval provides a foundation for the incorporation of a wide range of standards to define experimental metadata, and to promote the use of those standards by the biomedical community.  Among such standards are the Common Data Elements (CDEs) developed by the National Cancer Institute (NCI) and other groups for representing data types and value sets for a wide range of metadata.  NCI stores its CDEs in the Cancer Data Standards Repository (caDSR), and promotes the use of standard CDEs in the development of case report forms (CRFs) and other instruments used in clinical research. 

CEDAR technology enables the development and management of metadata for the representation of information about experimental conditions and experimental results.  Value sets are derived from ontologies stored in the BioPortal resource of the National Center for Biomedical Ontology.  Until now, there has been no mechanism to use CDEs either to define metadata data types or to define value sets that are applicable when CEDAR users instantiate metadata templates to create experimental metadata.

We have used the model for representing CDEs adopted by CaDSR, which is based on ISO standard 11179, to provide a framework for storing CDEs in CEDAR.  Already this approach allows users to browse CDEs for discovery, and it confirms that CEDAR has the capacity to store and manage this kind of representation.  Going forward, this capability will enable CEDAR’s use of CDEs as template elements and as value sets within CEDAR’s metadata creator, enabling metadata authors to select CDE values when creating experimental metadata.  Although CEDAR technology is not yet being used to create metadata for experiments involving human subjects, the availability of CDEs in CEDAR will allow us to adapt the system for the editing and deployment of electronic CRFs that can drive data collection for clinical trials.

Release Date: 
November 29, 2016
Mark Musen's presentation slides from talk #2 at the BD2K AHM
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Mark Musen
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Last Updated: 
Dec 2 2016 - 8:38am