CompuCell, a multi-model framework for simulation of morphogenesis JA Izaguirre, R Chaturvedi, C Huang, T Cickovski, J Coffland, G Thomas, ... Bioinformatics 20 (7), 1129-1137, 2004 | 245 | 2004 |

Combining fully convolutional and recurrent neural networks for 3d biomedical image segmentation J Chen, L Yang, Y Zhang, M Alber, DZ Chen arXiv preprint arXiv:1609.01006, 2016 | 228 | 2016 |

A multiscale model of thrombus development Z Xu, N Chen, MM Kamocka, ED Rosen, M Alber Journal of the Royal Society Interface 5 (24), 705-722, 2008 | 201 | 2008 |

The geometry of peaked solitons and billiard solutions of a class of integrable PDE's MS Alber, R Camassa, DD Holm, JE Marsden Letters in Mathematical Physics 32 (2), 137-151, 1994 | 192 | 1994 |

On cellular automaton approaches to modeling biological cells MS Alber, MA Kiskowski, JA Glazier, Y Jiang Mathematical systems theory in biology, communications, computation, and …, 2003 | 184 | 2003 |

Periodic reversal of direction allows Myxobacteria to swarm Y Wu, AD Kaiser, Y Jiang, MS Alber Proceedings of the National Academy of Sciences 106 (4), 1222-1227, 2009 | 146 | 2009 |

On multiscale approaches to three-dimensional modelling of morphogenesis R Chaturvedi, C Huang, B Kazmierczak, T Schneider, JA Izaguirre, ... Journal of the Royal Society interface 2 (3), 237-253, 2005 | 138 | 2005 |

Study of blood flow impact on growth of thrombi using a multiscale model Z Xu, N Chen, SC Shadden, JE Marsden, MM Kamocka, ED Rosen, ... Soft Matter 5 (4), 769-779, 2009 | 135 | 2009 |

A framework for three-dimensional simulation of morphogenesis TM Cickovski, C Huang, R Chaturvedi, T Glimm, HGE Hentschel, ... IEEE/ACM Transactions on Computational Biology and Bioinformatics 2 (4), 273-288, 2005 | 135 | 2005 |

A multiscale model of venous thrombus formation with surface-mediated control of blood coagulation cascade Z Xu, J Lioi, J Mu, MM Kamocka, X Liu, DZ Chen, ED Rosen, M Alber Biophysical journal 98 (9), 1723-1732, 2010 | 130 | 2010 |

A parallel implementation of the Cellular Potts Model for simulation of cell-based morphogenesis N Chen, JA Glazier, JA Izaguirre, MS Alber Computer physics communications 176 (11-12), 670-681, 2007 | 107 | 2007 |

The Complex Geometry of Weak Piecewise Smooth Solutions of Integrable Nonlinear PDE's¶ of Shallow Water and Dym Type MS Alber, R Camassa, YN Fedorov, DD Holm, JE Marsden Communications in Mathematical Physics 221 (1), 197-227, 2001 | 100 | 2001 |

Bare bones pattern formation: a core regulatory network in varying geometries reproduces major features of vertebrate limb development and evolution J Zhu, YT Zhang, MS Alber, SA Newman PloS one 5 (5), e10892, 2010 | 91 | 2010 |

Structural basis for the nonlinear mechanics of fibrin networks under compression OV Kim, RI Litvinov, JW Weisel, MS Alber Biomaterials 35 (25), 6739-6749, 2014 | 87 | 2014 |

Multiscale dynamics of biological cells with chemotactic interactions: from a discrete stochastic model to a continuous description M Alber, N Chen, T Glimm, PM Lushnikov Physical Review E 73 (5), 051901, 2006 | 84 | 2006 |

The mechanisms of microtubule catastrophe and rescue: implications from analysis of a dimer-scale computational model G Margolin, IV Gregoretti, TM Cickovski, C Li, W Shi, MS Alber, ... Molecular biology of the cell 23 (4), 642-656, 2012 | 83 | 2012 |

A three-dimensional model of myxobacterial aggregation by contact-mediated interactions O Sozinova, Y Jiang, D Kaiser, M Alber Proceedings of the National Academy of Sciences 102 (32), 11308-11312, 2005 | 82 | 2005 |

Macroscopic dynamics of biological cells interacting via chemotaxis and direct contact PM Lushnikov, N Chen, M Alber Physical Review E 78 (6), 061904, 2008 | 81 | 2008 |

Social interactions in myxobacterial swarming Y Wu, Y Jiang, D Kaiser, M Alber PLoS computational biology 3 (12), e253, 2007 | 78 | 2007 |

Algebraic geometrical solutions for certain evolution equations and Hamiltonian flows on nonlinear subvarieties of generalized Jacobians MS Alber, YN Fedorov Inverse Problems 17 (4), 1017, 2001 | 77 | 2001 |