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A framework for three-dimensional simulation of morphogenesis

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9 Author(s)
Cickovski, T.M. ; Dept. of Comput. Sci., Notre Dame Univ., IN, USA ; Chengbang Huang ; Chaturvedi, R. ; Glimm, Tilmann
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We present COMPUCELL3D, a software framework for three-dimensional simulation of morphogenesis in different organisms. COMPUCELL3D employs biologically relevant models for cell clustering, growth, and interaction with chemical fields. COMPUCELL3D uses design patterns for speed, efficient memory management, extensibility, and flexibility to allow an almost unlimited variety of simulations. We have verified COMPUCELL3D by building a model of growth and skeletal pattern formation in the avian (chicken) limb bud. Binaries and source code are available, along with documentation and input files for sample simulations, at http://

Published in:

Computational Biology and Bioinformatics, IEEE/ACM Transactions on  (Volume:2 ,  Issue: 4 )

Date of Publication:

Oct.-Dec. 2005

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