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Digital Library of the
European Council for Modelling and Simulation |
Title: |
Simulation Model For The Whole Life Cycle Of The Slime Mold Dictyostelium Discoideum |
Authors: |
Matthias Becker |
Published in: |
(2010).ECMS
2010 Proceedings edited by A Bargiela S A Ali D
Crowley E J H Kerckhoffs. European Council for
Modeling and Simulation. doi:10.7148/2010 ISBN:
978-0-9564944-1-2 24th
European Conference on Modelling and Simulation, Simulation Meets Global Challenges Kuala
Lumpur, June 1-4 2010 |
Citation
format: |
Becker, M. (2010). A Simulation
Model For The Whole Life Cycle Of The Slime Mold Dictyostelium
Discoideum. ECMS 2010 Proceedings edited by A Bargiela S A Ali D Crowley E J H Kerckhoffs
(pp. 247-252). European Council for Modeling and Simulation. doi:10.7148/2010-0247-0252 |
DOI: |
http://dx.doi.org/10.7148/2010-0247-0252 |
Abstract: |
Proteins play a vital role in maintaining
the balance of bodily functions in all living beings. However their functional properties are difficult to predict since
they depend not only on the sequence of constituent amino acids but also on
the 3D folding of the protein. This paper presents a new statistical method
for extraction of surface atoms of a protein. The method is based on space-voxelisation and generalizes our previous deterministic
method by repeating the surface extraction process for various orientations
of a protein; so as to achieve a statistical
consensus about surface atoms. Based on the experimental study we have
established an optimal range of values of voxel
occupancy for the selection of surface atoms; with optimality defined as a
maximum coincidence of extracted surface atoms from the protein presented to
the algorithm in 13 different orientations. The results show that the voxel occupancy threshold of between >40% and >50%
allows our algorithm to extract surface atoms with high degree of confidence. |
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