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Domain specific languages for cellular interactions.

William L Harrison1, Robert W Harrison

  • 1Dept. of Comput. Sci., Missouri-Columbia Univ., Columbia, MO, USA.

Conference Proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference
|February 3, 2007
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This study introduces a novel bioinformatics approach for modeling cellular life cycles. Using a domain-specific language (DSL) called CellSys in Haskell, researchers can simulate complex bacterial systems like R. Sphaeroides.

Area of Science:

  • Computational Biology
  • Systems Biology
  • Bioinformatics

Background:

  • Bioinformatics applies computer science to biological problems.
  • Modeling complex biological systems requires specialized tools.
  • Autonomous, intercommunicating cellular systems present unique modeling challenges.

Purpose of the Study:

  • To explore the application of domain-specific programming languages (DSLs) for modeling cellular life cycles.
  • To demonstrate a DSL-based approach for simulating autonomous, intercommunicating cellular systems.
  • To illustrate this modeling approach using the photosynthetic bacterium R. Sphaeroides.

Main Methods:

  • Development and application of a domain-specific language (DSL) named CellSys.
  • Embedding the CellSys DSL within the Haskell programming language.

Related Experiment Videos

  • Utilizing the CellSys DSL to model the life cycle of R. Sphaeroides.

    • Main Results:

    • Successfully modeled the life cycle of R. Sphaeroides using the CellSys DSL.
    • Demonstrated the potential of DSLs for simulating complex cellular systems.
    • Provided a computational framework for studying intercommunicating cellular systems.

    Conclusions:

    • DSLs offer a powerful and specialized approach for modeling biological systems.
    • The CellSys DSL in Haskell is effective for simulating bacterial life cycles.
    • This methodology holds significant potential for advancing systems biology research.