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Related Experiment Videos

caCORE: a common infrastructure for cancer informatics.

Peter A Covitz1, Frank Hartel, Carl Schaefer

  • 1National Cancer Institute Center for Bioinformatics, National Institutes of Health, U.S. Department of Health and Human Services, 6116 Executive Boulevard, Suite 403, Rockville MD 20852, USA. covitzp@mail.nih.gov

Bioinformatics (Oxford, England)
|December 12, 2003
PubMed
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The National Cancer Institute Center for Bioinformatics developed caCORE, a robust infrastructure for data management and integration. This system enhances data accessibility and enables the development of advanced biomedical applications by integrating diverse data sources.

Area of Science:

  • Bioinformatics and computational biology
  • Cancer research informatics
  • Biomedical data management and integration

Background:

  • Bioinformatics operations require robust infrastructure for data processing, delivery, and integration.
  • Challenges include ensuring reliable data access, managing locally generated data, and linking it to external sources.
  • Data consistency and comparability necessitate controlled vocabularies and metadata standards for representation.

Purpose of the Study:

  • To develop a comprehensive infrastructure for data management and integration to support advanced biomedical applications.
  • To address the challenges of data processing, reliable access, and data integration in bioinformatics settings.
  • To facilitate the extraction of maximum value from processed data through programmatic access.

Main Methods:

Related Experiment Videos

  • Development of an interconnected set of software and services named caCORE.
  • Implementation of Enterprise Vocabulary Services (EVS) for controlled vocabularies, dictionaries, and thesauri.
  • Establishment of the Cancer Data Standards Repository (caDSR) for a metadata registry of common data elements.
  • Creation of Cancer Bioinformatics Infrastructure Objects (caBIO) with an object-oriented model and multiple APIs (Java, SOAP, HTTP-XML).

Main Results:

  • caCORE provides a unified infrastructure for managing and integrating diverse biomedical data.
  • EVS and caDSR ensure standardized vocabulary and metadata for data consistency and comparability.
  • caBIO facilitates programmatic access to biomedical data through well-defined APIs.
  • caCORE has been successfully utilized to build scientific applications integrating genomic and clinical data.

Conclusions:

  • The caCORE infrastructure effectively addresses the challenges of bioinformatics data management and integration.
  • caCORE enables the development of advanced applications by providing standardized data access and integration capabilities.
  • The open-source nature of caBIO and the unrestricted availability of EVS and caDSR content promote widespread adoption and use.