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Numerical Methods for Biomembranes Based on Piecewise Linear Surfaces

  • John P. Brogan
  • Yilin Yang
  • Thomas P. -Y. YuEmail author
Conference paper
Part of the Lecture Notes in Computational Science and Engineering book series (LNCSE, volume 126)

Abstract

The shapes of phospholipid bilayer biomembranes are modeled by the celebrated Canham-Evans-Helfrich model as constrained Willmore minimizers. Several numerical treatments of the model have been proposed in the literature, one of which was used extensively by biophysicists over two decades ago to study real lipid bilayer membranes. While the key ingredients of this algorithm are implemented in Brakke’s well-known surface evolver software, some of its glory details were never explained by either the geometers who invented it or the biophysicists who used it. As such, most of the computational results claimed in the biophysics literature are difficult to reproduce. In this note, we give an exposition of this method, connect it with some related ideas in the literature, and propose a modification of the original method based on replacing mesh smoothing with harmonic energy regularization. We present a theoretical finding and related computational observations explaining why such a smoothing or regularization step is indispensable for the success of the algorithm. A software package called WMINCON is available for reproducing the experiments in this and related articles.

Notes

Acknowledgements

TY thanks Tom Duchamp, Robert Kusner, Shawn Walker and Aaron Yip for extensive discussions. This work is partially supported by NSF grants DMS 1115915 and DMS 1522337. We also thank the support of the Office of the Provost and the Steinbright Career Development Center of Drexel University.

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Copyright information

© Springer Nature Switzerland AG 2019

Authors and Affiliations

  • John P. Brogan
    • 1
  • Yilin Yang
    • 2
  • Thomas P. -Y. Yu
    • 1
    Email author
  1. 1.Department of MathematicsDrexel UniversityPhiladelphiaUSA
  2. 2.Center for Computational Engineering, M.I.T.CambridgeUSA

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