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Process Modeling and Rendering of Biochemical Structures: Actin

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Biomechanics of Cells and Tissues

Part of the book series: Lecture Notes in Computational Vision and Biomechanics ((LNCVB,volume 9))

Abstract

We propose stochastic process models as a means for studying and rendering unbounded biological structures, involving mechanisms that extend over geometric space. As an example, we discuss a case study of actin polymerization dynamics, which plays a key role in many cellular activities and enjoys a rich structure. We provide a comparative review of various approaches in the literature for modeling actin. We then illustrate on actin models how otherwise challenging structures can be modeled. In these models the complexity of the structures are incrementally increased with respect to the biological data. We present a geometric representation of these models that we use to generate movies reflecting their dynamics while preserving formal cleanliness as well as loyalty to the biological data.

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Notes

  1. 1.

    http://www.cytosim.org/cytosim/index.html

  2. 2.

    http://sites.google.com/site/ozankahramanogullari/software/graphical

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Acknowledgments

We thank Luca Cardelli for providing the initial filament model and his helpful suggestions.

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Authors and Affiliations

  1. The Microsoft Research—University of Trento Centre for Computational and Systems Biology, Pizza Manifatturra 1, 38068 , Rovereto, Italy

    Ozan Kahramanoğulları & Federico Vaggi

  2. Microsoft Research Cambridge, Cambridge, UK

    Andrew Phillips

Authors
  1. Ozan Kahramanoğulları
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  2. Andrew Phillips
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  3. Federico Vaggi
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Corresponding author

Correspondence to Ozan Kahramanoğulları .

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Editors and Affiliations

  1. Centre for Computational Mechanics, Microsoft Research lab, University of Trento, Piazza Manci 17, Trento, 38123, Italy

    Paola Lecca

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Kahramanoğulları, O., Phillips, A., Vaggi, F. (2013). Process Modeling and Rendering of Biochemical Structures: Actin. In: Lecca, P. (eds) Biomechanics of Cells and Tissues. Lecture Notes in Computational Vision and Biomechanics, vol 9. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-5890-2_2

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  • DOI: https://doi.org/10.1007/978-94-007-5890-2_2

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  • Print ISBN: 978-94-007-5889-6

  • Online ISBN: 978-94-007-5890-2

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