URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries

Por Drawert, Brian, Engblom, Stefan, Hellander, Andreas
Publicado em 2012

Reaction rates for mesoscopic reaction-diffusion kinetics

Por Hellander, Stefan, Hellander, Andreas, Petzold, Linda
Publicado no Phys Rev E Stat Nonlin Soft Matter Phys (2015)

Mesoscopic-microscopic spatial stochastic simulation with automatic system partitioning

Por Hellander, Stefan, Hellander, Andreas, Petzold, Linda
Publicado no J Chem Phys (2017)

Perspective: Stochastic algorithms for chemical kinetics

Por Gillespie, Daniel T., Hellander, Andreas, Petzold, Linda R.
Publicado em 2013

Accuracy of the Michaelis–Menten approximation when analysing effects of molecular noise

Por Lawson, Michael J., Petzold, Linda, Hellander, Andreas
Publicado no J R Soc Interface (2015)

ANALYSIS AND DESIGN OF JUMP COEFFICIENTS IN DISCRETE STOCHASTIC DIFFUSION MODELS()

Por MEINECKE, LINA, ENGBLOM, STEFAN, HELLANDER, ANDREAS, LÖTSTEDT, PER
Publicado no SIAM J Sci Comput (2016)

MESOSCOPIC MODELING OF STOCHASTIC REACTION-DIFFUSION KINETICS IN THE SUBDIFFUSIVE REGIME

Por BLANC, EMILIE, ENGBLOM, STEFAN, HELLANDER, ANDREAS, LÖTSTEDT, PER
Publicado no Multiscale Model Simul (2016)

Local error estimates for adaptive simulation of the Reaction–Diffusion Master Equation via operator splitting

Por Hellander, Andreas, Lawson, Michael J, Drawert, Brian, Petzold, Linda
Publicado no J Comput Phys (2014)

Spatial stochastic modelling of the Hes1 gene regulatory network: intrinsic noise can explain heterogeneity in embryonic stem cell differentiation

Por Sturrock, Marc, Hellander, Andreas, Matzavinos, Anastasios, Chaplain, Mark A. J.
Publicado em 2013

MOLNs: A CLOUD PLATFORM FOR INTERACTIVE, REPRODUCIBLE, AND SCALABLE SPATIAL STOCHASTIC COMPUTATIONAL EXPERIMENTS IN SYSTEMS BIOLOGY USING PyURDME

Por Drawert, Brian, Trogdon, Michael, Toor, Salman, Petzold, Linda, Hellander, Andreas
Publicado no SIAM J Sci Comput (2016)

GillesPy: A Python Package for Stochastic Model Building and Simulation

Por Abel, John H., Drawert, Brian, Hellander, Andreas, Petzold, Linda R.
Publicado no IEEE Life Sci Lett (2016)

The Role of Dimerisation and Nuclear Transport in the Hes1 Gene Regulatory Network

Por Sturrock, Marc, Hellander, Andreas, Aldakheel, Sahar, Petzold, Linda, Chaplain, Mark A.J.
Publicado em 2013

Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist

Por Drawert, Brian, Hellander, Andreas, Bales, Ben, Banerjee, Debjani, Bellesia, Giovanni, Daigle, Bernie J., Douglas, Geoffrey, Gu, Mengyuan, Gupta, Anand, Hellander, Stefan, Horuk, Chris, Nath, Dibyendu, Takkar, Aviral, Wu, Sheng, Lötstedt, Per, Krintz, Chandra, Petzold, Linda R.
Publicado no PLoS Comput Biol (2016)

Analysis of neural crest–derived clones reveals novel aspects of facial development

Por Kaucka, Marketa, Ivashkin, Evgeny, Gyllborg, Daniel, Zikmund, Tomas, Tesarova, Marketa, Kaiser, Jozef, Xie, Meng, Petersen, Julian, Pachnis, Vassilis, Nicolis, Silvia K., Yu, Tian, Sharpe, Paul, Arenas, Ernest, Brismar, Hjalmar, Blom, Hans, Clevers, Hans, Suter, Ueli, Chagin, Andrei S., Fried, Kaj, Hellander, Andreas, Adameyko, Igor
Publicado no Sci Adv (2016)

Oriented clonal cell dynamics enables accurate growth and shaping of vertebrate cartilage

Por Kaucka, Marketa, Zikmund, Tomas, Tesarova, Marketa, Gyllborg, Daniel, Hellander, Andreas, Jaros, Josef, Kaiser, Jozef, Petersen, Julian, Szarowska, Bara, Newton, Phillip T, Dyachuk, Vyacheslav, Li, Lei, Qian, Hong, Johansson, Anne-Sofie, Mishina, Yuji, Currie, Joshua D, Tanaka, Elly M, Erickson, Alek, Dudley, Andrew, Brismar, Hjalmar, Southam, Paul, Coen, Enrico, Chen, Min, Weinstein, Lee S, Hampl, Ales, Arenas, Ernest, Chagin, Andrei S, Fried, Kaj, Adameyko, Igor
Publicado no eLife (2017)