@inproceedings(Baoetal2010,
 author       = "Yifei Bao and Adriana B. Compagnoni and Joseph Glavy and Tommy White",
 year         = "2010",
 title        = "Computational Modeling for the Activation Cycle of {G}-proteins by {G}-protein-coupled Receptors",
 booktitle    = "MeCBIC'10",
 series       = "EPTCS",
 volume       = "40",
 pages        = "39--53",
 doi          = "10.4204/EPTCS.40.4",
)
@article(BDGT12,
 author       = "Livio Bioglio and Mariangiola Dezani-Ciancaglini and Paola Giannini and Angelo Troina",
 year         = "2012",
 title        = "Typed stochastic semantics for the calculus of looping sequences",
 journal      = "Theoretical Computer Science",
 volume       = "431",
 pages        = "165--180",
 doi          = "10.1016/j.tcs.2011.12.062",
)
@inproceedings(Bittig10,
 author       = "Arne T. Bittig and Adelinde M. Uhrmacher",
 year         = "2010",
 title        = "Spatial modeling in cell biology at multiple levels",
 booktitle    = "Winter Simulation Conference",
 pages        = "608--619",
)
@article(CardelliGTP09,
 author       = "Luca Cardelli and Emmanuelle Caron and Philippa Gardner and Ozan Kahramano{\u {g}}ullar{\i } and Andrew Phillips",
 year         = "2009",
 title        = "{A process model of Rho GTP-binding proteins}",
 journal      = "Theoretical Computer Science",
 volume       = "410",
 number       = "33",
 pages        = "3166--3185",
 doi          = "10.1016/j.tcs.2009.04.029",
)
@inproceedings(BioScape:CS2Bio,
 author       = "Adriana Compagnoni and Vishakha Sharma and Yifei Bao and Philippe Bidinger and Livio Bioglio and Eduardo Bonelli and Matthew Libera and Svetlana Sukhishvili",
 year         = "2012",
 title        = "BioScape: A Modeling and Simulation Language for Bacteria-Materials Interactions",
 booktitle    = "CS2Bio'12",
 series       = "ENTCS",
 note         = "To appear",
)
@article(CWCTCS,
 author       = "M. Coppo and F. Damiani and M. Drocco and E. Grassi and E. Sciacca and S. Spinella and A. Troina",
 year         = "2012",
 title        = "Simulation {T}echniques for the {C}alculus of {W}rapped {C}ompartments",
 journal      = "Theoretical Computer Science",
 volume       = "431",
 pages        = "75--95",
 doi          = "10.1016/j.tcs.2011.12.063",
)
@article(Gillespie_1977,
 author       = "Daniel T. Gillespie",
 year         = "1977",
 title        = "Exact stochastic simulation of coupled chemical reactions",
 journal      = "The Journal of Physical Chemistry",
 volume       = "81",
 number       = "25",
 pages        = "2340--2361",
 doi          = "10.1021/j100540a008",
)
@article(spacePi,
 author       = "Mathias John and Roland Ewald and Adelinde M. Uhrmacher",
 year         = "2008",
 title        = "A Spatial Extension to the $\pi $ Calculus",
 journal      = "ENTCS",
 volume       = "194",
 number       = "3",
 pages        = "133--148",
 doi          = "10.1016/j.entcs.2007.12.010",
)
@article(ABMS,
 author       = "CM Macal and MJ North",
 year         = "2010",
 title        = "Tutorial on agent-based modelling and simulation",
 journal      = "Journal of Simulation",
 volume       = "4",
 number       = "3",
 pages        = "151--162",
 doi          = "10.1057/jos.2010.3",
)
@article(LeNovereEtAl:2001,
 author       = "Nicolas Le Nov\`ere and Thomas Simon Shimuzu",
 year         = "2001",
 title        = "StochSim: modelling of stochastic biomolecular processes",
 journal      = "BioInformatics",
 volume       = "17",
 number       = "6",
 pages        = "575--576",
 doi          = "10.1093/bioinformatics/17.6.575",
)
@article(CImmSim,
 author       = "Francesco Pappalardo and Pierluigi Lollini and Filippo Castiglione and Santo Motta",
 year         = "2005",
 title        = "Modeling and simulation of cancer immunoprevention vaccine",
 journal      = "Bioinformatics",
 volume       = "21",
 number       = "12",
 pages        = "2891--2897",
 doi          = "10.1093/bioinformatics/bti426",
)
@inproceedings(Phillips07,
 author       = "Andrew Phillips and Luca Cardelli",
 year         = "2007",
 title        = "Efficient, Correct Simulation of Biological Processes in the Stochastic Pi-calculus",
 booktitle    = "CMSB'07",
 series       = "LNCS",
 volume       = "4695",
 publisher    = "Springer",
 pages        = "184--199",
 doi          = "10.1007/978-3-540-75140-3-13",
)
@inproceedings(PathSim,
 author       = "Nicholas F. Polys and Doug A. Bowman and Chris North and Reinhard Laubenbacher and Karen Duca",
 year         = "2004",
 title        = "PathSim visualizer: an Information-Rich Virtual Environment framework for systems biology",
 booktitle    = "Web3D'04",
 publisher    = "ACM Press",
 pages        = "7--14",
 doi          = "10.1145/985040.985042",
)
@article(Priami01,
 author       = "Corrado Priami and Aviv Regev and Ehud Y. Shapiro and William Silverman",
 year         = "2001",
 title        = "Application of A Stochastic Name-passing Calculus to Representation and Simulation of Molecular Processes",
 journal      = "Information Processing Letters",
 volume       = "80",
 number       = "1",
 pages        = "25--31",
 doi          = "10.1016/S0020-0190(01)00214-9",
)
@article(ISSO,
 author       = "Nicolas Rapin and Ole Lund and Filippo Castiglione",
 year         = "2011",
 title        = "Immune System Simulation Online",
 journal      = "Bioinformatics",
 doi          = "10.1093/bioinformatics/btr335",
)
@inproceedings(lpi,
 author       = "A. Stefanek and M. Vigliotti and J. T. Bradley",
 year         = "2009",
 title        = "Spatial extension of stochastic pi calculus",
 booktitle    = "8th Workshop on Process Algebra and Stochastically Timed Activities",
 pages        = "109--117",
)
@article(DCA,
 author       = "David S. Wishart and Robert Yang and David Arndt and Peter Tang and Joseph Cruz",
 year         = "2005",
 title        = "Dynamic cellular automata: an alternative approach to cellular simulation",
 journal      = "In Silico Biology",
 volume       = "5",
 number       = "2",
 pages        = "139--161",
)