Journal papers, conference proceedings and other scientific publications from COAST.

2010

• Book:

  A.G.Hoekstra, J. Kroc, and P.M.A. Sloot (Eds) Modelling Complex Systems with Cellular Automata, Spinger Verlag, July 2010.

  Alfons G. Hoekstra, Alfonso Caiazzo, Eric Lorenz, Jean-Luc Falcone, Bastien Chopard, Complex Automata: multi-scale Modeling with coupled Cellular Automata, in A.G.Hoekstra, J. Kroc, and P.M.A. Sloot (Eds) Modelling Complex Systems with Cellular Automata, Spinger Verlag, July 2010.

  Halliday I, Atherton MA, Care CM, Collins MW, Evans DE, Evans PC, Hose DR, Khir AW, Koenig C, R Krams, Lawford PV, Lishchuk SV., Pontrelli G, Ridger V, Spencer TJ, Ventikos Y, V Walker DC, Watton PN.  Multi-scale Interaction of particulate flow and the artery wall.  Medical Engineering and Physics 2010 in Press.

• Papers: 

  Cope J, Walker D, Smallwood R, Hose DR. Potential functions to describe mechanical cell-cell interactions.  Abstracts of IV International Congress on Computational Bioengineering, Sept 2009.  http://amsacta.cib.unibo.it/2646/1/ICCB2009__Book_of_Abstracts.pdf

   Halliday I, Lishchuk SV, Atherton MA, Care CM, Collins MW, Evans DE, Hose DR, Khir AW, Krams R, Lawford PV, Ridger V, Ventikos Y, Walker DC, Watton PN.  Multi-scale Interaction of Flow and the Artery Wall. Proceedings of 2nd Micro and Nano Flows Conference. Brunel University, West London, UK, 1-2 September 2009 http://bura.brunel.ac.uk/bitstream/2438/3623/1/16_MNF_2009.pdf

J-L. Falcone, B. Chopard, A.G.Hoekstra. MML: towards a Multiscale Modeling Language, Public Computer Science 00 (2010) 1-9. D2.3 COAST deliverable. MML paper

 Sloot PMA, Hoekstra AG. 2010. Multi-scale modelling in computational biomedicine. Brief Bioinform 11: 142-152. http://bib.oxfordjournals.org/cgi/reprint/11/1/142

  Walker DC and Southgate J. 2009 The Virtual Cell – a candidate co-ordinator for ‘middle-out’ modelling of biological systems.  Briefings in Bioinformatics 10 (4) 450-461 http://bib.oxfordjournals.org/cgi/reprint/10/4/450

•    Proceedings at conferences:

   ICCS 2010 Various posters and abstracts submitted.

2009

• Papers:

   J. Bernsdorf, D. Wang: Non-Newtonian Blood Flow Simulation on Cerebral Aneurysms, Computers and Mathematics with Applications (in press 2009).

   L. Axner; A.G. Hoekstra; A. Jeays; P.V. Lawford; R. Hose and P.M.A. Sloot: Simulations of time harmonic blood flow in the Mesenteric artery: comparing finite element and lattice Boltzmann methods, BioMedical Engineering OnLine, (on-line only; PubMedID = 19799782) vol. 8, nr 1 pp. 23+8. October 2009. ISSN 1475-925X. (DOI: 10.1186/1475-925X-8-23).

    A. Caiazzo; J.-L. Falcone; B. Chopard and A.G. Hoekstra: Asymptotic analysis of Complex Automata models for reaction-diffusion systems, Applied Numerical Mathematics, vol. 59, nr 8 pp. 2023-2034. 2009. ISSN 0168-9274. (DOI: 10.1016/j.apnum.2009.04.001)

   E. Lorenz, A. Caiazzo, A.G. Hoekstra;  Lees-Edwards Boundary Conditions for Lattice Boltzmann Simulations of Suspension Flow,  Phys. Rev. E 79, 036706, 2009.(DOI: http://pre.aps.org/abstract/PRE/v79/i3/e036706)

   E. Lorenz, A. Caiazzo, A.G. Hoekstra, Corrected Momentum Exchange for Lattice Boltzmann Simulations of Suspension Flow, S. Phys. Rev. E 79, 036705, 2009. (DOI: http://pre.aps.org/abstract/PRE/v79/i3/e036705)

Murtaza; A.G. Hoekstra and P.M.A. Sloot: Compute Bound and I/O Bound Cellular Automata Simulations on FPGA Logic, ACM Trans. Reconfigurable Technol. Syst., vol. 1, nr 4 pp. 1-21. ACM, New York, NY, USA, January 2009. ISSN 1936-7406. (DOI: 10.1145/1462586.1462592)

    P.M.A. Sloot and A.G. Hoekstra: Multi-scale modelling in computational biomedicine, Briefings in Bioinformatics, (Advance access) +11. Oxford University Press, Dec 2009. (DOI: 10.1093/bib/bbp038) .

   Dinan Wang, Jorg Bernsdorf: Lattice Boltzmann simulation of steady non-Newtonian blood flow in a 3D generic stenosis case. Computers and Mathematics with Applications 58, 2009; 1030-1034.

• Proceedings at conferences:

     Alfonso Caiazzo, David Evans, Jean-Luc Falcone, Jan Hegewald, Eric Lorenz5, Bernd Stahl3, DinanWang, Jorg Bernsdorf, Bastien Chopard, Julian Gunn, Rod Hose, Manfred Krafczyk, Patricia Lawford, Rod Smallwood, Dawn Walker, and Alfons G. Hoekstra. Towards a Complex Automata Multiscale Model of In-Stent Restenosis; ICCS 2009, Part I, LNCS 5544, pp. 705–714, 2009.ICCS 2009

  J. Bernsdorf, D. Wang, P. Hasselmeyer, and G. Berti; Two Complementary Approaches for integrating Lattice Boltzmann Flow Solvers into simulation networks. Proceedings of the Parallel CFD 2008 conference (submitted 2008).

   A. Caiazzo; J.-L. Falcone; D.J.W. Evans; E. Lorenz; J. Hegewald; A.G. Hoekstra; B. Chopard; R. Hose and P.V. Lawford: Complex Automata models for tissue growth in a stented artery, in Proceedings of European Consortium For Mathematics In Industry, ECMI08, (in press) in series Mathematics in Industry, Springer, 2009.

• Posters:

   E. Lorenz: Modeling Multiscale Complex Systems: A Methodological Approach, FET09, Prague, 2009.

   VPH NoE Initiative day: 9th September 2009 Brussels: On behalf of the COAST consortium: D.J.W. Evans (UoS), D. Walker (UoS), J.P. Gunn (UoS), M. Krafczyk (TUB),  B. Chopard (UniGe), J. Bernsdorff (NEC), A.G. Hoekstra (UvA), D.R. Hose (UoS), P. Lawford (UoS). Multiscale modeling and simulation of restenosis.

   Asymptotic analysis of Complex Automata models for reaction-diffusion systems Alfonso Caiazzo, Jean-Luc Falcone, Bastien Chopard, Alfons G. Hoekstra, Applied Numerical Mathematics 59 (2009) 2023-2034

2008

• Papers:

    L. Axner; J.M. Bernsdorf; T. Zeiser; P. Lammers; J. Linxweiler and A.G. Hoekstra: Performance evaluation of a parallel sparse lattice Boltzmann solver, Journal of Computational Physics, vol. 227, nr 10 pp. 4895-4911. May 2008. (DOI: 10.1016/j.jcp.2008.01.013)

D.J.W. Evans; P.V. Lawford; J. Gunn; D. Walker; D.R. Hose; R.H. Smallwood; B. Chopard; M. Krafczyk; J.M. Bernsdorf and A.G. Hoekstra: The Application of Multiscale Modelling to the Process of Development and Prevention of Stenosis in a Stented Coronary Artery, Phil. Trans. Roy. Soc A, vol. 366, pp. 3343-3360. 2008. (DOI: 10.1098/rsta.2008.0081) evans2008.pdf

     Evans DJW, Hoekstra A, Gunn J, Walker D, Hose DR Smallwood RH, Chopard B, Krafczyk, Bernsdorf J and Lawford PV. Multiscale modelling: Application of the Complex Automata Simulation Technique (COAST). J Biomechanics (2008), 41 (Supp 1); S482. [link]

• Proceedings at conferences:

    A. Caiazzo; J.-L. Falcone; B. Chopard and A.G. Hoekstra: Scale-Splitting Error in Complex Automata models for Reaction-Diffusion Systems, in M.T. Bubak; G.D. van Albada; J.J. Dongarra and P.M.A. Sloot, editors, Computational Science - ICCS 2008: 8th International Conference, Krakow, Poland, Proceedings, Part II, in series Lecture Notes in Computer Science, vol. 5102, pp. 291-300. Springer, Berlin, Heidelberg, June 2008. 978-3-540-69386-4.

    A. Caiazzo; J.-L. Falcone; B. Chopard and A.G. Hoekstra: Error Investigations in Complex Automata models for Reaction-Diffusion systems, in H. Umeo; and S. Morishita; K. Nishinari; T. Komatsuzaki and S. Bandini, editors, Cellular Automata, 8th International Conference on Cellular Automata for Reseach and Industry, ACRI 2008, in series Lecture Notes in Computer Science, vol. 5191, pp. 260-267. Springer, 2008. ISBN 978-3-540-79991-7.

     B. Chopard; J.-L. Falcone; R. Razakarinina; A.G. Hoekstra and A. Caiazzo: On the collision-propagation and gather-update formulations of a Cellular Automata rule, in H. Umeo; and S. Morishita; K. Nishinari; T. Komatsuzaki and S. Bandini, editors, Cellular Automata, 8th International Conference on Cellular Automata for Reseach and Industry, ACRI 2008, in series Lecture Notes in Computer Science, vol. 5191, pp. 144-151. Springer, 2008. ISBN 978-3-540-79991-7.

     Jan Hegewald, Manfred Krafczyk, Jonas Tölke, Alfons Hoekstra and Bastien Chopard, An agent-based coupling platform for complex Automata c, M. Bubak et al. (Eds.): ICCS 2008, Part II, LNCS 5102, pp. 227–233, 2008.ICCS 2008 Hegewald et al

     J J. Kroc and P.M.A. Sloot: Modeling of Complex Systems by Cellular Automata, in J.R. Rabuñal; J. Dorado and A. Pazos, editors, Encyclopedia of Artificial Intelligence. Information Science Reference, May 2008. ISBN: 978-1-59904-849-9. [link]

    Lawford PV, Ventikos Y, Khir AW, Atherton M, Evans D, Hose DR, Care CM, Watton PN, Halliday I, Walker DC, Hollis AP, Collins MW (2008) Modelling the interaction of haemodynamics and the artery wall: Current status and future prospects. Biomedicine & Pharmacotherapy. E-pub ahead of print. (doi:10.1098/rsta.2008.0081).

      P.M.A. Sloot and A.G. Hoekstra, Modeling Dynamic Systems with Cellular Automata", in Handbook of Dynamic System Modeling, Edior: Paul A. Fishwick, Series: Chapman & Hall/CRC Computer & Information Science Series

      25.06.2008 Publication, An Agent-Based Coupling Platform for Complex Automata
December 2008   Complex Automata Coupling Library online release

   A.Caiazzo, E.Lorenz, D.W.Evans, B.Stahl, R.Hose, P.Lawford, A.G.HoekstraComplex Automata Model for in-stent restenosis: coupling blood flow and cellular tissue growth; ; Summer workshop Mathematics for Biology and Medicine, Nottingham, 07th - 10th July, 2008.

2007

• Papers:

   L. Axner; J. Lätt, A.G. Hoekstra; B. Chopard and P.M.A. Sloot: Simulating Time Harmonic Flows with the Regularized L-BGK Method, Int. J. of Mod. Phys. C 18, 661-666. 2007. [link]Axner2007a.pdf

   J. Bernsdorf and D. Wang: Blood Flow Simulation in Cerebral Aneurysm: A Lattice Boltzmann Application in Medical Physics, Proceedings of the Parallel CFD 2007, Antalya, Turkey, May 2007

   J. Bernsdorf and D. Wang: Non-Newtonian Blood Flow Simulation in Cerebral Aneurysms, Proceedings of the ICMMES 2007, Munich, Germany, July 2007

 Alfons G. Hoekstra, Eric Lorenz, Jean-Luc Falcone, and Bastien Chopard, Toward a Complex Automata Formalism for MultiScale Modeling. Int. J. Multiscale Comput. Eng. 5, 491--502 (2007)Hoekstra 2007

    A. Hoekstra, E. Lorenz, J.-L. Falcone, and B. Chopard: Towards a Complex Automata Framework for Multi-scale Modeling: Formalism and the Scale Separation Map, in Computational Science – ICCS 2007 (LNCS vol. 4487, Springer Verlag) 2007, pp. 922-930. [link]

   E. Lorenz and W. Janke Numerical tests of local scale invariance in ageing q-state Potts models,  Europhys. Lett. 77, 10003, 2007.

• Proceedings

     Eric Lorenz, Alfons G. Hoekstra, Towards Multi-scale Lattice Boltzmann simulations of two-dimensional suspensions, Book of abstracts, ICMMES2007, Munich.

     P.M.A. Sloot and A.G. Hoekstra: Modeling Dynamic Systems with Cellular Automata, Chapter 21, in P.A. Fishwick, editor, Handbook of Dynamic System Modeling, pp. 21-1+6. Chapman & Hall/CRC, 2007. ISBN 1-58488-565-3.

     D. Wang and J. Bernsdorf, Lattice Boltzmann simulations of steady shear thinning blood flow with a Carreau-Yasuda model, submitted to the proceedings of the Parallel CFD 2007, Antalya, Turkey, 21.-24.05.2007.

2006

    Alfons G. Hoekstra, Bastien Chopard, Pat Lawford, Rod Hose, Manfred Krafczyk, Joerg Bernsdorf, "Introducing Complex Automata for Modelling Multi-Scale Complex Systems", in proceedings European Complex Systems Conference 2006, (CD), European Complex Systems Society, Oxford, UK, September 2006. ISBN 0-9554123-0-7.