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A framework for three-dimensional simulation of morphogenesis. 2005
Trevor M Cickovski, and
Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
Laboratory for Computational Life Sciences, Department of Computer Science and Engineering, University of Notre Dame, 325 Cushing Hall, Notre Dame, IN 46556, USA. tcickovs@nd.edu
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:// compucell.sourceforge.net.
Related Publications
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Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
October 2013,
Biomechanics and modeling in mechanobiology,
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H George E Hentschel, and
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August 2016,
Biomechanics and modeling in mechanobiology,
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Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
January 2015,
Biophysics and physicobiology,
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Rajiv Chaturvedi, and
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H George E Hentschel, and
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Stuart A Newman, and
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August 2020,
Physical chemistry chemical physics : PCCP,
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H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
September 2010,
American journal of orthodontics and dentofacial orthopedics : official publication of the American Association of Orthodontists, its constituent societies, and the American Board of Orthodontics,
Trevor M Cickovski, and
Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
January 2022,
Results and problems in cell differentiation,
Trevor M Cickovski, and
Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
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Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
November 2006,
The journal of histochemistry and cytochemistry : official journal of the Histochemistry Society,
Trevor M Cickovski, and
Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
March 2024,
Physical review letters,
Trevor M Cickovski, and
Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
November 2003,
Physics in medicine and biology,
Trevor M Cickovski, and
Chenbang Huang, and
Rajiv Chaturvedi, and
Tilmann Glimm, and
H George E Hentschel, and
Mark S Alber, and
James A Glazier, and
Stuart A Newman, and
Jesús A Izaguirre
January 2010,
Journal of social work in end-of-life & palliative care,
