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A prototype molecular interactive collaborative environment (MICE)

P Bourne1, M Gribskov, G Johnson

  • 1San Diego Supercomputer Center, CA 92186, USA.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
|August 11, 1998
PubMed
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This study introduces the Molecular Scene Description Language (MSDL) for querying and interacting with molecular scenes. MSDL enables collaborative research and distance learning through shared visualization of macromolecular structures.

Area of Science:

  • Structural Biology
  • Computational Biology
  • Bioinformatics

Background:

  • Scientific literature uses molecular scenes to depict macromolecular structure and function.
  • Current electronic formats lack interactivity and database query capabilities for these scenes.
  • Existing formats are not interchangeable or suitable for querying scene features.

Purpose of the Study:

  • To develop a system for interactive interrogation and database querying of molecular scenes.
  • To enable collaborative manipulation and analysis of macromolecular structures.
  • To facilitate remote scientific collaboration and distance learning.

Main Methods:

  • Defined a Molecular Scene Description Language (MSDL) for storing scenes in a relational database (molecular scene gallery).

Related Experiment Videos

  • Rendered scenes using Virtual Reality Modeling Language (VRML) displayed in a modified VRML browser (WebView).
  • Utilized the Virtual Reality Behavior System (VRBS) protocol for multi-client communication and scene manipulation.

    • Main Results:

    • Established a searchable molecular scene gallery.
    • Enabled real-time, collaborative manipulation of molecular scenes over the internet.
    • Demonstrated the potential for visual cues to trigger external applications, like remote MEME searches.

    Conclusions:

    • MSDL provides a robust framework for managing and interacting with molecular scenes.
    • The MICE system enhances collaborative research and educational opportunities in structural biology.
    • Ongoing development aims to improve browser compatibility and introduce a Java-based console for enhanced functionality.