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A proposal for a standard CORBA interface for genome maps.

E Barillot1, U Leser, P Lijnzaad

  • 1GIS Infobiogen, 7 rue Guy Môquet - BP 8, 94801 Villejuif cedex, France.

Bioinformatics (Oxford, England)
|March 25, 1999
PubMed
Summary
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Standardizing biological data exchange is crucial. This study introduces a common protocol using CORBA and an Interface Definition Language (IDL) for genome maps, enabling better data sharing.

Area of Science:

  • Bioinformatics
  • Genomics
  • Data Standardization

Background:

  • The scientific community requires standardized biological data exchange.
  • Common protocols and shared data structures are essential for interoperability.
  • Common Object Request Broker Architecture (CORBA) technology facilitates distributed object interoperability.

Purpose of the Study:

  • To define and present a standardized Interface Definition Language (IDL) specification for genome maps.
  • To enable interoperable exchange of biological data, specifically genome maps.
  • To facilitate the distribution of genome map databases.

Main Methods:

  • Utilized CORBA technology for standardization.
  • Defined an IDL specification for genome map data structures.

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  • Implemented CORBA servers based on the IDL specification.

    • Main Results:

    • An IDL specification for genome maps has been defined and is available.
    • CORBA servers have been implemented to distribute RHdb and HuGeMap maps.
    • The IDL specification is designed to evolve with the mapping community's needs.

    Conclusions:

    • The developed IDL specification and CORBA servers provide a standardized method for genome map data exchange.
    • This standardization promotes interoperability and facilitates access to biological data.
    • The approach supports the ongoing needs of the genomics and bioinformatics communities.