BioDynaMo: a modular platform for high-performance agent-based simulation
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Marcus Kaiser | Onur Mutlu | Zaid Al-Ars | Marco Manca | Vasileios Vavourakis | Lukas Breitwieser | Ahmad Hesam | Jean de Montigny | Alexandros Iosif | Jack Jennings | Alberto Di Meglio | Fons Rademakers | Roman Bauer | A. D. Meglio | O. Mutlu | Marcus Kaiser | Marco Manca | Z. Al-Ars | F. Rademakers | A. Di Meglio | Marco Manca | V. Vavourakis | R. Bauer | Jean de Montigny | Alexandros Iosif | Lukas Breitwieser | Jack L. Jennings | Ahmad Hesam | J. Montigny
[1] Daniela M. Romano,et al. High performance cellular level agent-based simulation with FLAME for the GPU , 2010, Briefings Bioinform..
[2] Elisabete C Costa,et al. 3D tumor spheroids as in vitro models to mimic in vivo human solid tumors resistance to therapeutic drugs , 2018, Biotechnology and bioengineering.
[3] Randy Heiland,et al. PhysiCell: An open source physics-based cell simulator for 3-D multicellular systems , 2017, bioRxiv.
[4] Andrew Phillips,et al. Computational modeling of synthetic microbial biofilms. , 2012, ACS synthetic biology.
[5] Philipp M. Altrock,et al. The mathematics of cancer: integrating quantitative models , 2015, Nature Reviews Cancer.
[6] Steven F. Railsback,et al. Agent-Based and Individual-Based Modeling: A Practical Introduction , 2011 .
[7] J. Jefferys,et al. Specific cytoarchitectureal changes in hippocampal subareas in daDREAM mice , 2016, Molecular Brain.
[8] Cristian Picioreanu,et al. iDynoMiCS: next-generation individual-based modelling of biofilms. , 2011, Environmental microbiology.
[9] Somchai Pattana,et al. Division d'un milieu cellulaire sous contraintes mécaniques : utilisation de la mécanique des matériaux granulaires , 2006 .
[10] J. Gurdon,et al. Morphogen gradient interpretation , 2001, Nature.
[11] C. C. Law,et al. ParaView: An End-User Tool for Large-Data Visualization , 2005, The Visualization Handbook.
[12] Greg Miller,et al. A Scientist's Nightmare: Software Problem Leads to Five Retractions , 2006, Science.
[13] O. Sten-Knudsen,et al. Passive Transport Processes , 1978 .
[14] Thomas E. Yankeelov,et al. Multi-scale Modeling in Clinical Oncology: Opportunities and Barriers to Success , 2016, Annals of Biomedical Engineering.
[15] Alexander G. Fletcher,et al. Chaste: An Open Source C++ Library for Computational Physiology and Biology , 2013, PLoS Comput. Biol..
[16] Frederico A. C. Azevedo,et al. Equal numbers of neuronal and nonneuronal cells make the human brain an isometrically scaled‐up primate brain , 2009, The Journal of comparative neurology.
[17] Kent L. Beck,et al. Extreme programming explained - embrace change , 1990 .
[18] Maciej Cytowski,et al. Large-Scale Parallel Simulations of 3D Cell Colony Dynamics , 2014, Computing in Science & Engineering.
[19] Erik De Schutter,et al. Context-aware modeling of neuronal morphologies , 2014, Front. Neuroanat..
[20] Hiroaki Kitano,et al. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models , 2003, Bioinform..
[21] Fons Rademakers,et al. ROOT — An object oriented data analysis framework , 1997 .
[22] L. Levin,et al. Biodiversity on the Rocks: Macrofauna Inhabiting Authigenic Carbonate at Costa Rica Methane Seeps , 2015, PloS one.
[23] Tianlin Liu,et al. Generation of Multicellular Tumor Spheroids with Microwell-Based Agarose Scaffolds for Drug Testing , 2015, PloS one.
[24] Marco Manca,et al. An in silico hybrid continuum-/agent-based procedure to modelling cancer development: interrogating the interplay amongst glioma invasion, vascularity and necrosis. , 2020, Methods.
[25] Jacky L. Snoep,et al. BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems , 2005, Nucleic Acids Res..
[26] Zhiwei Ji,et al. Mathematical and Computational Modeling in Complex Biological Systems , 2017, BioMed research international.
[27] K. Basler,et al. Dpp controls growth and patterning in Drosophila wing precursors through distinct modes of action , 2017, eLife.
[28] Vittorio Cristini,et al. Patient-calibrated agent-based modelling of ductal carcinoma in situ (DCIS): from microscopic measurements to macroscopic predictions of clinical progression. , 2012, Journal of theoretical biology.
[29] Randal A. Koene,et al. NETMORPH: A Framework for the Stochastic Generation of Large Scale Neuronal Networks With Realistic Neuron Morphologies , 2009, Neuroinformatics.
[30] Nicholas S. Flann,et al. Biocellion: accelerating computer simulation of multicellular biological system models , 2014, Bioinform..
[31] I W Taylor,et al. Cell proliferation kinetics of MCF-7 human mammary carcinoma cells in culture and effects of tamoxifen on exponentially growing and plateau-phase cells. , 1983, Cancer research.
[32] Mario di Bernardo,et al. BSim 2.0: An Advanced Agent-Based Cell Simulator. , 2017, ACS synthetic biology.
[33] G. Amdhal,et al. Validity of the single processor approach to achieving large scale computing capabilities , 1967, AFIPS '67 (Spring).
[34] K. Perez. Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment , 2014 .
[35] G.E. Moore,et al. Cramming More Components Onto Integrated Circuits , 1998, Proceedings of the IEEE.
[36] Michael J. North,et al. AgentCell: a digital single-cell assay for bacterial chemotaxis , 2005, Bioinform..
[37] Rodney J. Douglas,et al. Frontiers in Computational Neuroscience , 2022 .
[38] R.H. Dennard,et al. Design Of Ion-implanted MOSFET's with Very Small Physical Dimensions , 1974, Proceedings of the IEEE.