Skip to main content
Log in

Development and validation of computational models of cellular interaction

  • Published:
Journal of Molecular Histology Aims and scope Submit manuscript

Abstract

In this paper we take the view that computational models of biological systems should satisfy two conditions – they should be able to predict function at a systems biology level, and robust techniques of validation against biological models must be available. A modelling paradigm for developing a predictive computational model of cellular interaction is described, and methods of providing robust validation against biological models are explored, followed by a consideration of software issues.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Balanescu T, Cowling AJ., Gheorgescu H, Gheorghe M, Holcombe M, Vertan C (1999)Communicating stream X-machines systems are no more than X-machines.J Univ Comput Sci 5 (9):494–507.

    Google Scholar 

  • Boey SK, Boal DH, Discher DE (1998)Simulations of the erythro-cyte cytoskeleton at large deformation.I.Microscopic Models. Biophys J 75:1573–1583.

    Google Scholar 

  • Brodland GW, Chen HH 2000.The mechanics of heterotypic cell aggregates:Insights from Computer Simulations.J Biomech Eng 122:402–407.

    Google Scholar 

  • Brodland GW Veldhuis JH (2002)Computer simulations of mitosis and interdependencies between mitosis orientation, cell shape and epithelia reshaping.J Biomech 35:673–681.

    Google Scholar 

  • Chen HH, Brodland GW (2000)Cell-level nite element studies of viscous cells in planar aggregates.J Biomech Eng 122:394–401.

    Google Scholar 

  • Discher DE, Boal DH, Boey SK (1998)Simulations of the erythrocyte cytoskeleton at large deformation.II.Micropipette Aspiration.Biophys J 75:1584–1597.

    Google Scholar 

  • Fisher MJ, Paton RC, Matsuno K (1999).Intracellular signalling proteins as 'smart 'agents in parallel distributed processes.BioSyst 50 159–171.

    Google Scholar 

  • Georghe M, Holcombe M, Kefalas, P (2001)Computational models for collective foraging, 4th International Workshop on Information Processing in Cells and Tissues, Lueven, Belgium.

  • Glazier JA, Graner F (1993)Simulation of the Differential Adhesion driven Rearrangement of Biological Cells.Phys Rev E47:2128–2153.

    Google Scholar 

  • Hogeweg P (2000)Evolving mechanisms of morphogenesis:on the interplay between differential adhesion and cell differentiation.J Theor Biol 203:317–333.

    Google Scholar 

  • Holcombe M, Ipate F (1998)Correct systems:building a business process solution.Springer Verlag, London.

    Google Scholar 

  • Ingber DE (1993)Cellular tensegrity:de ning new rules of biological design that govern the cytoskeleton.J Cell Sci 104:613–627.

    Google Scholar 

  • Ingber DE, Heidemann SR, Lamoureux P, Buxbaum RE (2000) Opposing views on tensegrity as a structural framework for understanding cell mechanics.J Appl Physiol 89:1663–1678.

    Google Scholar 

  • Lee YKS, McIntire LV, Zygourakis K (1995)A cellular automaton model for the proliferation of migrating contact-Inhibited Cells. Biophys J 69:1284–1298.

    Google Scholar 

  • Lim JHF, Davies GA (1990)A stochastic model to simulate the growth of anchorage dependent cells on flat surfaces.Biotechnol Bioeng 36:547–562.

    Google Scholar 

  • Forestell SP, MBJ, Kalogerakis N, Behie LA (1992)A cellular automaton model for the growth of anchorage-dependent mammalian cells used in vaccine production.Chem Eng Sci 47:2381–2386.

    Google Scholar 

  • Morel D, Marcelpoil R, Brugal G (2001)A proliferation control net-work model:the simulation of two-dimensional epithelial homeostasis.Acta Biotheor 49:219–234.

    Google Scholar 

  • Onami S, Hamahashi S, Nagasaki M, Miyano S, Kitano H (2002) Automatic acquisition of cell lineage through 4D microscopy and analysis of early C.elegans embryogenesis.In:Kitano H, ed.Foundations of Systems Biology.Cambridge, Ma: MIT Press.

    Google Scholar 

  • Palsson E (2001)A three-dimensional model of cell movement in multi-cellular systems.Future Gen Comput Sys 17:835–852.

    Google Scholar 

  • Ryder EF, Bullard L, Hone J, Olmstead J, Ward MO (1999)Graphical simulation of early development of the cerebral cortex.Comput methods Prog Biomed 59:107–114.

    Google Scholar 

  • Ruaan RC, Tsai GJ, Tsao GT (1993)Monitoring and Modelling of Density-Dependent Growth of Anchorage-Dependent Cells.Biotechnol and Bioeng 41:380–389.

    Google Scholar 

  • Savill NJ, Hogeweg P (1997)Modelling Morphogenesis:From Single Cells to Crawling Slugs.J Theor Biol 184:229–235.

    Google Scholar 

  • Shafrir Y, Forgacs G (2002)Mechanotransduction through the cytoskeleton.Am J Physiol Cell Physiol 282:C479-C486.

    Google Scholar 

  • Stamenovic D, Fredberg JJ, Wang N, Butler JP and Ingber DE (1996)A microstructural approach to cytoskeletal mechanics based on tensegrity.J Theor Biol 181:125–136.

    Google Scholar 

  • Steel MA, Penny D (1993)Distributions of tree comparison metrics-some new results.Systematic Biol 42:126–141.

    Google Scholar 

  • Stekel D, Rashbass J, Williams ED (1995)A computer graphic simulation of squamous epithelium.J theor biol 175:283–293.

    Google Scholar 

  • Sulston JE, Schierenberg E, White JG, Thomson JN (1983)The embryonic cell lineage of the Nematode Caenorhabditis elegans. Dev Biol 100:64–119.

    Google Scholar 

  • Zygourakis K, Bizios R, Markenscoff P (1991a)Proliferation of anchorage-dependent contact-inhibited cells:I.Development of theoretical models based on cellular automata.Biotechnol and Bioeng 38:459–470.

    Google Scholar 

  • Zygourakis K, Markenscoff P, Bizios R, (1991b)Proliferation of anchorage-dependent contact-inhibited cells:II.Experimental results and validation of the theoretical models.Biotechnol and Bioeng 38:471–479.

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Rights and permissions

Reprints and permissions

About this article

Cite this article

Smallwood, R.H., Holcombe, W.M.L. & Walker, D.C. Development and validation of computational models of cellular interaction. Histochem J 35, 659–665 (2004). https://doi.org/10.1007/s10735-004-2660-1

Download citation

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10735-004-2660-1

Keywords

Navigation