A node-based version of the cellular Potts model
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[1] Jonathan E. Gale,et al. Live-cell delamination counterbalances epithelial growth to limit tissue overcrowding , 2012, Nature.
[2] A. Voss-Böhme. Multi-Scale Modeling in Morphogenesis: A Critical Analysis of the Cellular Potts Model , 2012, PloS one.
[3] A. F. Marée,et al. The biophysical nature of cells: potential cell behaviours revealed by analytical and computational studies of cell surface mechanics , 2015, BMC biophysics.
[4] Gerson G. H. Cavalheiro,et al. An Efficient Parallel Algorithm to Evolve Simulations of the Cellular Potts Model , 2005, Parallel Process. Lett..
[5] L. Preziosi,et al. Modeling the early stages of vascular network assembly , 2003, The EMBO journal.
[6] M. Scott,et al. A force based model of individual cell migration with discrete attachment sites and random switching terms. , 2013, Journal of biomechanical engineering.
[7] H. Honda,et al. Transformation of a polygonal cellular pattern during sexual maturation of the avian oviduct epithelium: computer simulation. , 1986, Journal of embryology and experimental morphology.
[8] A K Harris,et al. Is Cell sorting caused by differences in the work of intercellular adhesion? A critique of the Steinberg hypothesis. , 1976, Journal of theoretical biology.
[9] Alexander R. A. Anderson,et al. Single-Cell-Based Models in Biology and Medicine , 2007 .
[10] A. Kabla,et al. Collective cell migration: leadership, invasion and segregation , 2011, Journal of The Royal Society Interface.
[11] G Wayne Brodland,et al. Computer simulations of mitosis and interdependencies between mitosis orientation, cell shape and epithelia reshaping. , 2002, Journal of biomechanics.
[12] G W Brodland,et al. Embryonic tissue morphogenesis modeled by FEM. , 1994, Journal of biomechanical engineering.
[13] Maria Leptin,et al. Physical models of mesoderm invagination in Drosophila embryo. , 2013, Biophysical journal.
[14] B. Honig,et al. Coaction of intercellular adhesion and cortical tension specifies tissue surface tension , 2010, Proceedings of the National Academy of Sciences.
[15] P. Tonino,et al. Relationship between VEGF and p53 expression and tumor cell proliferation in human gastrointestinal carcinomas , 2007, Journal of Cancer Research and Clinical Oncology.
[16] Roeland M. H. Merks,et al. Cell elongation is key to in silico replication of in vitro vasculogenesis and subsequent remodeling. , 2006, Developmental biology.
[17] T. Lecuit,et al. Cell surface mechanics and the control of cell shape, tissue patterns and morphogenesis , 2007, Nature Reviews Molecular Cell Biology.
[18] Y. Bellaïche,et al. PTEN controls junction lengthening and stability during cell rearrangement in epithelial tissue. , 2013, Developmental cell.
[19] W. H. Weinberg,et al. Theoretical foundations of dynamical Monte Carlo simulations , 1991 .
[20] J. Wrana,et al. Regulation of Planar Cell Polarity by Smurf Ubiquitin Ligases , 2009, Cell.
[21] Konrad Basler,et al. Integrating force-sensing and signaling pathways in a model for the regulation of wing imaginal disc size , 2012, Development.
[22] M. Bate,et al. The development of Drosophila melanogaster , 1993 .
[23] G. Christofori,et al. Cell adhesion in tumor invasion and metastasis: loss of the glue is not enough. , 2001, Biochimica et biophysica acta.
[24] Maciej Swat,et al. Adhesion between cells, diffusion of growth factors, and elasticity of the AER produce the paddle shape of the chick limb. , 2006, Physica A.
[25] Frank Jülicher,et al. The Influence of Cell Mechanics, Cell-Cell Interactions, and Proliferation on Epithelial Packing , 2007, Current Biology.
[26] S. Eaton,et al. Hexagonal packing of Drosophila wing epithelial cells by the planar cell polarity pathway. , 2005, Developmental cell.
[27] G. Oster,et al. The mechanical basis of cell rearrangement. I. Epithelial morphogenesis during Fundulus epiboly. , 1990, Development.
[28] M. A. Novotny,et al. Parallelization of a Dynamic Monte Carlo Algorithm: a Partially Rejection-Free Conservative Approach , 1998, ArXiv.
[29] Ruth E. Baker,et al. Multi-Cellular Rosettes in the Mouse Visceral Endoderm Facilitate the Ordered Migration of Anterior Visceral Endoderm Cells , 2012, PLoS biology.
[30] Ruth E Baker,et al. Incorporating chemical signalling factors into cell-based models of growing epithelial tissues , 2011, Journal of Mathematical Biology.
[31] R. Beddington,et al. Active cell migration drives the unilateral movements of the anterior visceral endoderm , 2004, Development.
[32] G. Wayne Brodland,et al. A cell-based constitutive model for embryonic epithelia and other planar aggregates of biological cells , 2006 .
[33] G Wayne Brodland,et al. The Differential Interfacial Tension Hypothesis (DITH): a comprehensive theory for the self-rearrangement of embryonic cells and tissues. , 2002, Journal of biomechanical engineering.
[34] Jesús A. Izaguirre,et al. A Hybrid Discrete-Continuum Model for 3-D Skeletogenesis of the Vertebrate Limb , 2004, ACRI.
[35] H. Honda,et al. Two different mechanisms of planar cell intercalation leading to tissue elongation , 2008, Developmental dynamics : an official publication of the American Association of Anatomists.
[36] Katsuya Nakashima,et al. Vertex models for two-dimensional grain growth , 1989 .
[37] L. Preziosi,et al. A multiscale hybrid approach for vasculogenesis and related potential blocking therapies. , 2011, Progress in Biophysics and Molecular Biology.
[38] P. Alberch,et al. The mechanical basis of morphogenesis. I. Epithelial folding and invagination. , 1981, Developmental biology.
[39] R. B. Potts. Some generalized order-disorder transformations , 1952, Mathematical Proceedings of the Cambridge Philosophical Society.
[40] G Wayne Brodland,et al. A new cell-based FE model for the mechanics of embryonic epithelia , 2007, Computer methods in biomechanics and biomedical engineering.
[41] Y. Sawada,et al. Diffusion and deformations of single hydra cells in cellular aggregates. , 2000, Biophysical journal.
[42] Erica D. Perryn,et al. Vascular sprout formation entails tissue deformations and VE-cadherin-dependent cell-autonomous motility. , 2008, Developmental biology.
[43] Dirk Drasdo,et al. On Selected Individual-based Approaches to the Dynamics in Multicellular Systems , 2003 .
[44] Stanislav Y Shvartsman,et al. Three-dimensional epithelial morphogenesis in the developing Drosophila egg. , 2013, Developmental cell.
[45] F. Amblard,et al. New insights into the regulation of E-cadherin distribution by endocytosis. , 2012, International review of cell and molecular biology.
[46] P. Rørth,et al. Collective cell migration. , 2009, Annual review of cell and developmental biology.
[47] Yasuji Sawada,et al. Improving the realism of the cellular Potts model in simulations of biological cells , 2003 .
[48] G. Wayne Brodland,et al. Computational modeling of cell sorting, tissue engulfment, and related phenomena: A review , 2004 .
[49] Alexandra Jilkine,et al. Polarization and Movement of Keratocytes: A Multiscale Modelling Approach , 2006, Bulletin of mathematical biology.
[50] G. V. Vande Woude,et al. HGF/SF‐met signaling in the control of branching morphogenesis and invasion , 2003, Journal of cellular biochemistry.
[51] Nan Chen,et al. A Parallel Implementation of the Cellular Potts Model for Simulation of Cell-Based Morphogenesis , 2006, ACRI.
[52] Roeland M. H. Merks,et al. Modeling Morphogenesis in silico and in vitro: Towards Quantitative, Predictive, Cell-based Modeling , 2009 .
[53] Christian von Mering,et al. Cell-Sorting at the A/P Boundary in the Drosophila Wing Primordium: A Computational Model to Consolidate Observed Non-Local Effects of Hh Signaling , 2011, PLoS Comput. Biol..
[54] Gerhard Christofori,et al. Changing neighbours, changing behaviour: cell adhesion molecule‐mediated signalling during tumour progression , 2003, The EMBO journal.
[55] Roeland M. H. Merks,et al. Dynamic mechanisms of blood vessel growth , 2006, Nonlinearity.
[56] Luigi Preziosi,et al. Cellular Potts Models: Multiscale Extensions and Biological Applications , 2013 .
[57] M. Clements,et al. Nodal Dependent Differential Localisation of Dishevelled-2 Demarcates Regions of Differing Cell Behaviour in the Visceral Endoderm , 2011, PLoS biology.
[58] M. S. Steinberg,et al. Does differential adhesion govern self-assembly processes in histogenesis? Equilibrium configurations and the emergence of a hierarchy among populations of embryonic cells. , 1970, The Journal of experimental zoology.
[59] P. Hogeweg,et al. Evolving mechanisms of morphogenesis: on the interplay between differential adhesion and cell differentiation. , 2000, Journal of theoretical biology.
[60] Tzvetelina Tzvetkova-Chevolleau,et al. On the Influence of Discrete Adhesive Patterns for Cell Shape and Motility: A Computational Approach , 2010 .
[61] Glazier,et al. Simulation of the differential adhesion driven rearrangement of biological cells. , 1993, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.
[62] Marco Scianna,et al. A Multiscale Hybrid Model for Pro-angiogenic Calcium Signals in a Vascular Endothelial Cell , 2011, Bulletin of Mathematical Biology.
[63] Christopher P. Grant,et al. Cell speed is independent of force in a mathematical model of amoeboidal cell motion with random switching terms. , 2013, Mathematical biosciences.
[64] Takashi Hiiragi,et al. Computer simulation of emerging asymmetry in the mouse blastocyst , 2008, Development.
[65] Gerson G. H. Cavalheiro,et al. High Performance Simulations of the Cellular Potts Model , 2006, 20th International Symposium on High-Performance Computing in an Advanced Collaborative Environment (HPCS'06).
[66] P. Armstrong,et al. CELL SORTING IN THE PRESENCE OF CYTOCHALASIN B , 1972, The Journal of cell biology.
[67] D. Ingber,et al. Mechanotransduction at a distance: mechanically coupling the extracellular matrix with the nucleus , 2009, Nature Reviews Molecular Cell Biology.
[68] M. Krieg,et al. Tensile forces govern germ-layer organization in zebrafish , 2008, Nature Cell Biology.
[69] G. Oster,et al. Notochord morphogenesis in Xenopus laevis: simulation of cell behavior underlying tissue convergence and extension. , 1991, Development.
[70] Gerhard Christofori,et al. Cell adhesion and signalling by cadherins and Ig-CAMs in cancer , 2004, Nature Reviews Cancer.
[71] Kenneth A. Brakke,et al. The Surface Evolver , 1992, Exp. Math..
[72] James Tegart,et al. Three-dimensional fluid interfaces in cylindrical containers , 1991 .
[73] David K. Lubensky,et al. Coupling Mechanical Deformations and Planar Cell Polarity to Create Regular Patterns in the Zebrafish Retina , 2012, PLoS Comput. Biol..
[74] Delfim F. M. Torres,et al. Vaccination models and optimal control strategies to dengue. , 2013, Mathematical biosciences.
[75] B Burnside,et al. A mechanical model for epithelial morphogenesis , 1980, Journal of mathematical biology.
[76] Radhika Nagpal,et al. Modeling and Inferring Cleavage Patterns in Proliferating Epithelia , 2009, PLoS Comput. Biol..
[78] José C. M. Mombach,et al. Quantitative comparison between differential adhesion models and cell sorting in the presence and absence of fluctuations. , 1995, Physical review letters.
[79] L. Preziosi,et al. Modeling the influence of nucleus elasticity on cell invasion in fiber networks and microchannels. , 2013, Journal of theoretical biology.
[80] E. Kovacs,et al. Cell–Cell Contact: Cooperating Clusters of Actin and Cadherin , 2008, Current Biology.
[81] Koo-Chul Lee,et al. Rejection-free Monte Carlo technique , 1995 .
[82] Glazier,et al. Simulation of biological cell sorting using a two-dimensional extended Potts model. , 1992, Physical review letters.
[83] Tatsuzo Nagai,et al. A three-dimensional vertex dynamics cell model of space-filling polyhedra simulating cell behavior in a cell aggregate. , 2004, Journal of theoretical biology.
[84] J. Glazier,et al. Solving the advection-diffusion equations in biological contexts using the cellular Potts model. , 2005, Physical review. E, Statistical, nonlinear, and soft matter physics.
[85] James A. Glazier,et al. Magnetization to Morphogenesis: A Brief History of the Glazier-Graner-Hogeweg Model , 2007 .
[86] N. Perrimon,et al. The emergence of geometric order in proliferating metazoan epithelia , 2006, Nature.
[87] François Graner,et al. Cell adhesion and cortex contractility determine cell patterning in the Drosophilaretina , 2007, Proceedings of the National Academy of Sciences.
[88] A. Deutsch,et al. A New Mechanism for Collective Migration in Myxococcus xanthus , 2007 .
[89] A. B. Bortz,et al. A new algorithm for Monte Carlo simulation of Ising spin systems , 1975 .
[90] Colin J. Wiebe,et al. Mechanical Effects of Cell Anisotropy on Epithelia , 2004, Computer methods in biomechanics and biomedical engineering.
[91] J. Smith,et al. Do cells cycle? , 1973, Proceedings of the National Academy of Sciences of the United States of America.
[92] E. Chichilnisky. A mathematical model of pattern formation. , 1986, Journal of theoretical biology.
[93] E. Purcell. Life at Low Reynolds Number , 2008 .
[94] G. Brodland,et al. Cellular interfacial and surface tensions determined from aggregate compression tests using a finite element model , 2009, HFSP journal.
[95] Brodland Gw. Finite element methods for developmental biology. , 1994 .
[96] Marder. Soap-bubble growth. , 1987, Physical review. A, General physics.
[97] Okuzono,et al. Intermittent flow behavior of random foams: A computer experiment on foam rheology. , 1995, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.
[98] Malcolm S. Steinberg,et al. Reconstruction of Tissues by Dissociated Cells , 1963 .
[99] Kenneth A. Brakke. The Opaque Cube Problem , 1992 .
[100] Ruth E Baker,et al. Vertex models of epithelial morphogenesis. , 2014, Biophysical journal.
[101] B. Davies,et al. Ligands to FGF receptor 2-IIIb induce proliferation, motility, protection from cell death and cytoskeletal rearrangements in epithelial ovarian cancer cell lines , 2006, Growth factors.
[102] S. Hayashi,et al. A wave of EGFR signaling determines cell alignment and intercalation in the Drosophila tracheal placode , 2007, Development.
[103] P. Bongrand,et al. Cell-cell contacts , 1990 .
[104] T. Newman,et al. Modeling multicellular systems using subcellular elements. , 2005, Mathematical biosciences and engineering : MBE.
[105] L Preziosi,et al. Percolation, morphogenesis, and burgers dynamics in blood vessels formation. , 2003, Physical review letters.
[106] Jie Liang,et al. Mechanisms of Regulating Cell Topology in Proliferating Epithelia: Impact of Division Plane, Mechanical Forces, and Cell Memory , 2012, PloS one.
[107] Jeremy B. A. Green. Sophistications of cell sorting , 2008, Nature Cell Biology.
[108] Luigi Preziosi,et al. Multiscale Developments of the Cellular Potts Model , 2012, Multiscale Model. Simul..
[109] J. Sherratt,et al. Intercellular adhesion and cancer invasion: a discrete simulation using the extended Potts model. , 2002, Journal of theoretical biology.