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Volumn 16, Issue 1, 2013, Pages 137-152

Investigating biocomplexity through the agent-based paradigm

Author keywords

Agent based model; Biological complexity; Cell; Computational modeling; Emergence; Hybrid models

Indexed keywords

BIOLOGICAL MODEL; BIOLOGY; PROCEDURES;

EID: 84926441447     PISSN: 14675463     EISSN: 14774054     Source Type: Journal    
DOI: 10.1093/bib/bbt077     Document Type: Article
Times cited : (34)

References (109)
  • 1
    • 34547466828 scopus 로고    scopus 로고
    • Functional information and the emergence of biocomplexity
    • Hazen RM, Griffin PL, Carothers JM, et al. Functional information and the emergence of biocomplexity. Proc Natl Acad SciUSA 2007;104(Suppl 1):8574-81.
    • (2007) Proc Natl Acad SciUSA , vol.104 , pp. 8574-8581
    • Hazen, R.M.1    Griffin, P.L.2    Carothers, J.M.3
  • 2
    • 0035885159 scopus 로고    scopus 로고
    • Complexity science-the challenge of complexity in health care
    • Plsek PE, Greenhalgh T. Complexity science-the challenge of complexity in health care. BMJ 2001;323(7313):625-8.
    • (2001) BMJ , vol.323 , Issue.7313 , pp. 625-628
    • Plsek, P.E.1    Greenhalgh, T.2
  • 3
    • 79957898989 scopus 로고    scopus 로고
    • Complex systems and cellular automata models in the study of complexity
    • Chira C, Gog A, Lung RI, et al. Complex systems and cellular automata models in the study of complexity. Stud Inform Ser 2010;LV:33-49.
    • (2010) Stud Inform Ser , vol.55 , pp. 33-49
    • Chira, C.1    Gog, A.2    Lung, R.I.3
  • 4
    • 25844516431 scopus 로고    scopus 로고
    • Assessing physiological complexity
    • Burggren WW, Monticino AG. Assessing physiological complexity. J ExpBiol 2005;208(Pt 17): 3221-32.
    • (2005) J ExpBiol , vol.208 , pp. 3221-3232
    • Burggren, W.W.1    Monticino, A.G.2
  • 5
    • 29144500784 scopus 로고    scopus 로고
    • Defining biocomplexity: an ecological perspective
    • Anand M, Tucker BC. Defining biocomplexity: an ecological perspective. CommentsTheor Biol 2003;8(4-5):497-510.
    • (2003) CommentsTheor Biol , vol.8 , Issue.4-5 , pp. 497-510
    • Anand, M.1    Tucker, B.C.2
  • 6
    • 0035665196 scopus 로고    scopus 로고
    • Defining and unraveling biocomplexity
    • Michener WK, Baerwald TJ, Firth P, et al. Defining and unraveling biocomplexity. Bioscience 2001;51(12):1018-23.
    • (2001) Bioscience , vol.51 , Issue.12 , pp. 1018-1023
    • Michener, W.K.1    Baerwald, T.J.2    Firth, P.3
  • 8
    • 77955303846 scopus 로고    scopus 로고
    • Emergence as a computability-theoretic phenomenon
    • Cooper SB. Emergence as a computability-theoretic phenomenon. ApplMath Comput 2009;215(4):1351-60.
    • (2009) ApplMath Comput , vol.215 , Issue.4 , pp. 1351-1360
    • Cooper, S.B.1
  • 9
    • 56249123996 scopus 로고    scopus 로고
    • Characterizing emergent properties of immunological systems with multi-cellular rule-based computational modeling
    • Chavali AK, Gianchandani EP, Tung KS, Lawrence MB, Peirce SM, Papin JA. Characterizing emergent properties of immunological systems with multi-cellular rule-based computational modeling. Trends Immuno 2008;29(12):589-99.
    • (2008) Trends Immuno , vol.29 , Issue.12 , pp. 589-599
    • Chavali, A.K.1    Gianchandani, E.P.2    Tung, K.S.3    Lawrence, M.B.4    Peirce, S.M.5    Papin, J.A.6
  • 10
    • 0842264193 scopus 로고    scopus 로고
    • Engineering complex systems
    • Ottino JM. Engineering complex systems. Nature 2004; 427(6973):399.
    • (2004) Nature , vol.427 , Issue.6973 , pp. 399
    • Ottino, J.M.1
  • 11
    • 67049143968 scopus 로고    scopus 로고
    • Algorithmic systems biology
    • Priami C. Algorithmic systems biology. Commun ACM 2009;52(5):80-8.
    • (2009) Commun ACM , vol.52 , Issue.5 , pp. 80-88
    • Priami, C.1
  • 12
    • 18244387710 scopus 로고    scopus 로고
    • In vitro, in vivo, in silico: computational systems in tissue engineering and regenerative medicine
    • Semple JL, Woolridge N, Lumsden CJ. In vitro, in vivo, in silico: computational systems in tissue engineering and regenerative medicine. Tissue Eng 2005;11(3-4):341-56.
    • (2005) Tissue Eng , vol.11 , Issue.3-4 , pp. 341-356
    • Semple, J.L.1    Woolridge, N.2    Lumsden, C.J.3
  • 14
    • 77953878345 scopus 로고    scopus 로고
    • High performance cellular level agent-based simulation with FLAME for the GPU
    • Richmond P, Walker D, Coakley S, et al. High performance cellular level agent-based simulation with FLAME for the GPU. Brief Bioinform 2010;11(3):334-47.
    • (2010) Brief Bioinform , vol.11 , Issue.3 , pp. 334-347
    • Richmond, P.1    Walker, D.2    Coakley, S.3
  • 15
    • 0030212784 scopus 로고    scopus 로고
    • Principles and methods of testing finite state machines-a survey
    • Lee D, Yannakakis M. Principles and methods of testing finite state machines-a survey. Proc IEEE 1996;84(8):1090-123.
    • (1996) Proc IEEE , vol.84 , Issue.8 , pp. 1090-1123
    • Lee, D.1    Yannakakis, M.2
  • 16
    • 0000135489 scopus 로고
    • Simulation of biological cell sorting using a 2-dimensional extended Potts-model
    • Graner F, Glazier JA. Simulation of biological cell sorting using a 2-dimensional extended Potts-model. Phys Rev Lett 1992;69(13):2013-6.
    • (1992) Phys Rev Lett , vol.69 , Issue.13 , pp. 2013-2016
    • Graner, F.1    Glazier, J.A.2
  • 17
    • 20744434856 scopus 로고    scopus 로고
    • AgentCell: a digital single-cell assay for bacterial chemotaxis
    • Emonet T, Macal CM, North MJ, et al. AgentCell: a digital single-cell assay for bacterial chemotaxis. Bioinformatics 2005;21(11):2714-21.
    • (2005) Bioinformatics , vol.21 , Issue.11 , pp. 2714-2721
    • Emonet, T.1    Macal, C.M.2    North, M.J.3
  • 18
    • 51749108892 scopus 로고    scopus 로고
    • Development of a two-dimensional agent-based model for chronic chagasic cardiomyopathy after stem cell transplantation
    • Galvao V, Miranda JGV, Ribeiro-Dos-Santos R. Development of a two-dimensional agent-based model for chronic chagasic cardiomyopathy after stem cell transplantation. Bioinformatics 2008;24(18):2051-6.
    • (2008) Bioinformatics , vol.24 , Issue.18 , pp. 2051-2056
    • Galvao, V.1    Miranda, J.G.V.2    Ribeiro-Dos-Santos, R.3
  • 19
    • 84928200726 scopus 로고    scopus 로고
    • Agent-oriented stem cell computational modeling
    • Belém do Pará, Brazil, Sociedade Brasileira de Computação, Porto Alegre, Brazil, 29 May, date last accessed
    • Gatti M, Faustino G, Vasconcellos J, et al. Agent-oriented stem cell computational modeling. Proceedings of the XXVIII Brazilian computing society congress, Belém do Pará, Brazil, 2008. Sociedade Brasileira de Computação, Porto Alegre, Brazil. http://www.lbd.dcc.ufmg.br/cole coes/semish/2008/003.pdf (29 May 2013, date last accessed).
    • (2008) Proceedings of the XXVIII Brazilian computing society congress
    • Gatti, M.1    Faustino, G.2    Vasconcellos, J.3
  • 20
    • 34247603905 scopus 로고    scopus 로고
    • Stochastic differential delay equation, moment stability, and application to hematopoietic stem cell regulation system
    • Lei J, Mackey M. Stochastic differential delay equation, moment stability, and application to hematopoietic stem cell regulation system. SIAM J Appl Math 2007;67(2):387-407.
    • (2007) SIAM J Appl Math , vol.67 , Issue.2 , pp. 387-407
    • Lei, J.1    Mackey, M.2
  • 21
    • 0036370668 scopus 로고    scopus 로고
    • The universal properties of stem cells as pinpointed by a simple discrete model
    • Agur Z, Daniel Y, Ginosar Y. The universal properties of stem cells as pinpointed by a simple discrete model. JMath Biol 2002;44(1):79-86.
    • (2002) JMath Biol , vol.44 , Issue.1 , pp. 79-86
    • Agur, Z.1    Daniel, Y.2    Ginosar, Y.3
  • 22
    • 0042883985 scopus 로고    scopus 로고
    • Towards predictive models of stem cell fate
    • Viswanathan S, Zandstra PW. Towards predictive models of stem cell fate. Cytotechnology 2003;41(2-3):75-92.
    • (2003) Cytotechnology , vol.41 , Issue.2-3 , pp. 75-92
    • Viswanathan, S.1    Zandstra, P.W.2
  • 23
    • 4744344132 scopus 로고    scopus 로고
    • In silico experiments of existing and hypothetical cytokine-directed clinical trials using agent-based modeling
    • An G. In silico experiments of existing and hypothetical cytokine-directed clinical trials using agent-based modeling. Crit Care Med 2004;32(10):2050-60.
    • (2004) Crit Care Med , vol.32 , Issue.10 , pp. 2050-2060
    • An, G.1
  • 24
    • 0037076425 scopus 로고    scopus 로고
    • Agent-based modeling: Methods and techniques for simulating human systems
    • Bonabeau E. Agent-based modeling: Methods and techniques for simulating human systems. Proc Natl Acad Sci USA 2002;99:7280-7.
    • (2002) Proc Natl Acad Sci USA , vol.99 , pp. 7280-7287
    • Bonabeau, E.1
  • 25
    • 33750946820 scopus 로고    scopus 로고
    • Modeling the effect of exogenous calcium on keratinocyte and HaCat cell proliferation and differentiation using an agent-based computational paradigm
    • Walker D, Sun T, Macneil S, et al. Modeling the effect of exogenous calcium on keratinocyte and HaCat cell proliferation and differentiation using an agent-based computational paradigm. Tissue Eng 2006;12(8):2301-9.
    • (2006) Tissue Eng , vol.12 , Issue.8 , pp. 2301-2309
    • Walker, D.1    Sun, T.2    Macneil, S.3
  • 26
    • 70450278800 scopus 로고    scopus 로고
    • Hybrid cellular automaton modeling of nutrient modulated cell growth in tissue engineering constructs
    • Chung CA, Lin TH, Chen SD, et al. Hybrid cellular automaton modeling of nutrient modulated cell growth in tissue engineering constructs. JTheorBiol 2010;262(2):267-78.
    • (2010) JTheorBiol , vol.262 , Issue.2 , pp. 267-278
    • Chung, C.A.1    Lin, T.H.2    Chen, S.D.3
  • 27
    • 33646198731 scopus 로고    scopus 로고
    • Cell population dynamics modulate the rates of tissue growth processes
    • Cheng G, Youssef BB, Markenscoff P, et al. Cell population dynamics modulate the rates of tissue growth processes. BiophysJ 2006;90(3):713-24.
    • (2006) BiophysJ , vol.90 , Issue.3 , pp. 713-724
    • Cheng, G.1    Youssef, B.B.2    Markenscoff, P.3
  • 28
    • 77950286044 scopus 로고    scopus 로고
    • Agent-based models in ecology:patterns and alternative theories of adaptive behaviour
    • Billari FCF, Prskawetz Thomas, Scheffran Alexia, Jürgen (eds), Heidelberg:Physica-Verlag HD
    • Grimm V, Railsback SF. Agent-based models in ecology:patterns and alternative theories of adaptive behaviour. In:Billari FCF, Prskawetz Thomas, Scheffran Alexia, Jürgen (eds). Agent-Based Computational Modelling. Heidelberg:Physica-Verlag HD, 2006;139-52.
    • (2006) Agent-Based Computational Modelling , pp. 139-152
    • Grimm, V.1    Railsback, S.F.2
  • 30
    • 70349454512 scopus 로고    scopus 로고
    • Introduction to agent-based modeling and simulation
    • 29 May, date last accessed
    • Macal M, North M. Introduction to agent-based modeling and simulation. Proceedings of the MCS LANS Informal Seminar. http://www.mcs.anl.gov/~leyffer/listn/slides-06/MacalNorth.pdf (29 May 2013, date last accessed).
    • (2013) Proceedings of the MCS LANS Informal Seminar
    • Macal, M.1    North, M.2
  • 31
    • 84875629075 scopus 로고    scopus 로고
    • A multi-paradigm modeling framework to simulate dynamic reciprocity in a bioreactor
    • Kaul H, Cui Z, Ventikos Y. A multi-paradigm modeling framework to simulate dynamic reciprocity in a bioreactor. PLoS One 2013;8(3):e59671.
    • (2013) PLoS One , vol.8 , Issue.3 , pp. e59671
    • Kaul, H.1    Cui, Z.2    Ventikos, Y.3
  • 32
    • 34548342938 scopus 로고    scopus 로고
    • Combining experiments with multi-cell agent-based modeling to study biological tissue patterning
    • Thorne BC, Bailey AM, Peirce SM. Combining experiments with multi-cell agent-based modeling to study biological tissue patterning. Brief Bioinform 2007;8(4):245-57.
    • (2007) Brief Bioinform , vol.8 , Issue.4 , pp. 245-257
    • Thorne, B.C.1    Bailey, A.M.2    Peirce, S.M.3
  • 33
    • 38749114292 scopus 로고    scopus 로고
    • Agent-based modeling of multicell morphogenic processes during development
    • Thorne BC, Bailey AM, DeSimone DW, et al. Agent-based modeling of multicell morphogenic processes during development. BirthDefects Res 2007;81(4):344-53.
    • (2007) BirthDefects Res , vol.81 , Issue.4 , pp. 344-353
    • Thorne, B.C.1    Bailey, A.M.2    DeSimone, D.W.3
  • 34
    • 0026459891 scopus 로고
    • A model for simulating cognate recognition and response in the immune-system
    • Seiden PE, Celada F. A model for simulating cognate recognition and response in the immune-system. J Theor Biol 1992;158(3):329-57.
    • (1992) J Theor Biol , vol.158 , Issue.3 , pp. 329-357
    • Seiden, P.E.1    Celada, F.2
  • 36
    • 84960561455 scopus 로고
    • On computable numbers, with an application to the Entscheidungsproblem
    • Turing AM. On computable numbers, with an application to the Entscheidungsproblem. Proc Lond Math Soc 1936;2:230-65.
    • (1936) Proc Lond Math Soc , vol.2 , pp. 230-265
    • Turing, A.M.1
  • 37
    • 77953882522 scopus 로고    scopus 로고
    • An Agent-Based software platform for modelling systems biology
    • Epitheliome Project Report, 29 May, date last accessed
    • Adra S, Coakley S, Kiran M, et al. An Agent-Based software platform for modelling systems biology. Epitheliome Project Report. 2008. http://www.imagwiki.nibib.nih. gov/mediawiki/images/c/ca/FLAME_Documentation.pdf (29 May 2013, date last accessed).
    • (2008)
    • Adra, S.1    Coakley, S.2    Kiran, M.3
  • 38
    • 0033904095 scopus 로고    scopus 로고
    • On agent-based software engineering
    • Jennings NR. On agent-based software engineering. Artif Intell 2000;117(2):277-96.
    • (2000) Artif Intell , vol.117 , Issue.2 , pp. 277-296
    • Jennings, N.R.1
  • 40
    • 39349106325 scopus 로고    scopus 로고
    • Differentiation of embryonic stem cells to clinically relevant populations: lessons from embryonic development
    • Murry CE, Keller G. Differentiation of embryonic stem cells to clinically relevant populations: lessons from embryonic development. Cell 2008;132(4):661-80.
    • (2008) Cell , vol.132 , Issue.4 , pp. 661-680
    • Murry, C.E.1    Keller, G.2
  • 41
    • 0003434834 scopus 로고
    • Object-Oriented Analysis and Design with Applications
    • Redwood City: Benjamin/Cummings
    • Booch G. Object-Oriented Analysis and Design with Applications. Redwood City: Benjamin/Cummings, 1994.
    • (1994)
    • Booch, G.1
  • 42
    • 84949449509 scopus 로고
    • Norms as mental objects. From normative beliefs to normative goals
    • Castelfranchi C, Muller JP (eds), Berlin: Springer
    • Conte R, Castelfranchi C. Norms as mental objects. From normative beliefs to normative goals. In: Castelfranchi C, Muller JP (eds). From Reaction to Cognition. Berlin: Springer, 1995;186-96.
    • (1995) From Reaction to Cognition , pp. 186-196
    • Conte, R.1    Castelfranchi, C.2
  • 43
    • 0002583349 scopus 로고
    • The distributed vehicle monitoring testbed: A tool for investigating distributed problem solving networks
    • Lesser V, Corkill D. The distributed vehicle monitoring testbed: A tool for investigating distributed problem solving networks. AIMag 1983;4(3):63-109.
    • (1983) AIMag , vol.4 , Issue.3 , pp. 63-109
    • Lesser, V.1    Corkill, D.2
  • 44
    • 0026980835 scopus 로고
    • On the synthesis of useful social laws for artificial agent societies
    • San Jose, CA. Palo Alto, CA, USA: Association for the Advancement of Artificial Intelligence
    • Shoham Y, Tennenholtz M. On the synthesis of useful social laws for artificial agent societies. In: AAAI'92 Proceedings of the tenth national conference on Artificial Intelligence, San Jose, CA. Palo Alto, CA, USA: Association for the Advancement of Artificial Intelligence, 1992;276-81.
    • (1992) AAAI'92 Proceedings of the tenth national conference on Artificial Intelligence , pp. 276-281
    • Shoham, Y.1    Tennenholtz, M.2
  • 45
    • 0032074719 scopus 로고    scopus 로고
    • Methods for task allocation via agent coalition formation
    • Shehory O, Kraus S. Methods for task allocation via agent coalition formation. Artif Intell 1998;101(1-2):165-200.
    • (1998) Artif Intell , vol.101 , Issue.1-2 , pp. 165-200
    • Shehory, O.1    Kraus, S.2
  • 47
    • 12344327314 scopus 로고    scopus 로고
    • Photo- and electropatterning of hydrogel-encapsulated living cell arrays
    • Albrecht DR, Tsang VL, Sah RL, et al. Photo- and electropatterning of hydrogel-encapsulated living cell arrays. Lab Chip 2005;5(1):111-8.
    • (2005) Lab Chip , vol.5 , Issue.1 , pp. 111-118
    • Albrecht, D.R.1    Tsang, V.L.2    Sah, R.L.3
  • 48
    • 3042825341 scopus 로고    scopus 로고
    • Nanoliter-scale synthesis of arrayed biomaterials and application to human embryonic stem cells
    • Anderson DG, Levenberg S, Langer R. Nanoliter-scale synthesis of arrayed biomaterials and application to human embryonic stem cells. Nat Biotechnol 2004;22(7):863-6.
    • (2004) Nat Biotechnol , vol.22 , Issue.7 , pp. 863-866
    • Anderson, D.G.1    Levenberg, S.2    Langer, R.3
  • 49
    • 65349131924 scopus 로고    scopus 로고
    • Engineered microenvironments for controlled stem cell differentiation
    • Burdick JA, Vunjak-Novakovic G. Engineered microenvironments for controlled stem cell differentiation. Tissue Eng Part A 2009;15(2):205-19.
    • (2009) Tissue Eng Part A , vol.15 , Issue.2 , pp. 205-219
    • Burdick, J.A.1    Vunjak-Novakovic, G.2
  • 50
    • 77951218278 scopus 로고    scopus 로고
    • Engineering hydrogels as extracellular matrix mimics
    • Geckil H, Xu F, Zhang XH, et al. Engineering hydrogels as extracellular matrix mimics. Nanomedicine (Lond) 2010;5(3):469-84.
    • (2010) Nanomedicine (Lond) , vol.5 , Issue.3 , pp. 469-484
    • Geckil, H.1    Xu, F.2    Zhang, X.H.3
  • 51
    • 42149094990 scopus 로고    scopus 로고
    • Enhanced cardiomyogenesis of human embryonic stem cells by a small molecular inhibitor of p38 MAPK
    • Graichen R, Xu XQ, Braam SR, et al. Enhanced cardiomyogenesis of human embryonic stem cells by a small molecular inhibitor of p38 MAPK. Differentiation 2008;76(4):357-70.
    • (2008) Differentiation , vol.76 , Issue.4 , pp. 357-370
    • Graichen, R.1    Xu, X.Q.2    Braam, S.R.3
  • 52
    • 33748967069 scopus 로고    scopus 로고
    • Of extracellular matrix, scaffolds, and signaling: tissue architecture regulates development, homeostasis, and cancer
    • Nelson CM, Bissell MJ. Of extracellular matrix, scaffolds, and signaling: tissue architecture regulates development, homeostasis, and cancer. AnnuRevCellDev Biol 2006;22:287-309.
    • (2006) AnnuRevCellDev Biol , vol.22 , pp. 287-309
    • Nelson, C.M.1    Bissell, M.J.2
  • 53
    • 34547174122 scopus 로고    scopus 로고
    • Asymmetry of stem cell fate and the potential impact of the niche-observations, simulations, and interpretations
    • Roeder I, Lorenz R. Asymmetry of stem cell fate and the potential impact of the niche-observations, simulations, and interpretations. Stem Cell Rev 2006;2(3):171-80.
    • (2006) Stem Cell Rev , vol.2 , Issue.3 , pp. 171-180
    • Roeder, I.1    Lorenz, R.2
  • 54
    • 33745635043 scopus 로고    scopus 로고
    • The stem-cell niche as an entity of action
    • Scadden DT. The stem-cell niche as an entity of action. Nature 2006;441(7097):1075-9.
    • (2006) Nature , vol.441 , Issue.7097 , pp. 1075-1079
    • Scadden, D.T.1
  • 55
    • 38649086379 scopus 로고    scopus 로고
    • A comparison of random vs. chemotaxis-driven contacts of T cells with dendritic cells during repertoire scanning
    • Riggs T, Walts A, Perry N, et al. A comparison of random vs. chemotaxis-driven contacts of T cells with dendritic cells during repertoire scanning. JTheorBiol. 2008;250(4):732-51.
    • (2008) JTheorBiol. , vol.250 , Issue.4 , pp. 732-751
    • Riggs, T.1    Walts, A.2    Perry, N.3
  • 56
    • 23744434889 scopus 로고    scopus 로고
    • Agent-based modeling of the context dependency in T cell recognition
    • Casal A, Sumen C, Reddy TE, et al. Agent-based modeling of the context dependency in T cell recognition. J Theor Biol. 2005;236(4):376-91.
    • (2005) J Theor Biol. , vol.236 , Issue.4 , pp. 376-391
    • Casal, A.1    Sumen, C.2    Reddy, T.E.3
  • 57
    • 16644367322 scopus 로고    scopus 로고
    • Development and validation of computational models of cellular interaction
    • Smallwood RH, Holcombe WML, Walker DC. Development and validation of computational models of cellular interaction. JMol Histol 2004;35(7):659-65.
    • (2004) JMol Histol , vol.35 , Issue.7 , pp. 659-665
    • Smallwood, R.H.1    Holcombe, W.M.L.2    Walker, D.C.3
  • 58
    • 84928190782 scopus 로고    scopus 로고
    • A Multi-agentbased 3d visualization of stem cell behaviour
    • Monografias em Ciência da Computação, 29 May, date last accessed
    • Faustino G, Gatti M, de Lucena C, et al. A Multi-agentbased 3d visualization of stem cell behaviour. Monografias em Ciência da Computação. 2008. ftp://ftp.inf.puc-rio.br/pub/docs/techreports/08_07_faustino.pdf (29 May 2013, date last accessed).
    • (2008)
    • Faustino, G.1    Gatti, M.2    de Lucena, C.3
  • 59
    • 56749152800 scopus 로고    scopus 로고
    • Agent-based modelling of stem cell self-organisation in a niche
    • Bruecker S (ed), Heidelberg, Berlin:Springer
    • d'Inverno M, Saunders R. Agent-based modelling of stem cell self-organisation in a niche. In: Bruecker S (ed). Engineering Self-Organizing Systems. Heidelberg, Berlin:Springer, 2005;52-68.
    • (2005) Engineering Self-Organizing Systems , pp. 52-68
    • d'Inverno, M.1    Saunders, R.2
  • 60
    • 33644997478 scopus 로고    scopus 로고
    • Flocking for multi-agent dynamic systems:Algorithms and theory
    • Olfati-Saber R. Flocking for multi-agent dynamic systems:Algorithms and theory. IEEETransAutomatContr 2006;51(3):401-20.
    • (2006) IEEETransAutomatContr , vol.51 , Issue.3 , pp. 401-420
    • Olfati-Saber, R.1
  • 62
    • 38049178804 scopus 로고    scopus 로고
    • A navigation algorithm for swarm robotics inspired by slime mold aggregation
    • Sahin E, Spears WM, Winfield AFT (eds), Swarm Robotics. Heidelberg: Springer Berlin
    • Schmickl T, Crailsheim K. A navigation algorithm for swarm robotics inspired by slime mold aggregation. In:Sahin E, Spears WM, Winfield AFT (eds). Engineering Self-Organizing Systems. Swarm Robotics. Heidelberg: Springer Berlin, 2007;1-13.
    • (2007) Engineering Self-Organizing Systems , pp. 1-13
    • Schmickl, T.1    Crailsheim, K.2
  • 63
    • 0004083688 scopus 로고
    • Tissue Interactions and Development
    • San Francisco: W.A. Benjamin, Inc
    • Wessells N. Tissue Interactions and Development. San Francisco: W.A. Benjamin, Inc, 1977;276.
    • (1977) , pp. 276
    • Wessells, N.1
  • 64
    • 0038398925 scopus 로고    scopus 로고
    • The disunity of consciousness
    • Zeki S. The disunity of consciousness. TrendsCogn Sci, 2003;7(5):200-8.
    • (2003) TrendsCogn Sci , vol.7 , Issue.5 , pp. 200-208
    • Zeki, S.1
  • 65
    • 84971386868 scopus 로고
    • Flocks, herds and schools: A distributed behavioural model
    • SIGGRAPH (ACM Special Interest Group on Computer Graphics and Interactive Techniques), New York, NY, USA
    • Reynolds CW. Flocks, herds and schools: A distributed behavioural model. In: SIGGRAPH '87 Proceedings of the 14th annual conference on computer graphics and interactive techniques, 1987;25-34. SIGGRAPH (ACM Special Interest Group on Computer Graphics and Interactive Techniques), New York, NY, USA.
    • (1987) SIGGRAPH '87 Proceedings of the 14th annual conference on computer graphics and interactive techniques , pp. 25-34
    • Reynolds, C.W.1
  • 66
    • 0038702140 scopus 로고    scopus 로고
    • Agent-based modeling vs. equation-based modeling: A case study and users 'guide
    • Sichman JS, Conte R, Gilbert N (eds), Heidelberg, Berlin: Springer
    • Parunak HV, Savit R, Riolo RL. Agent-based modeling vs. equation-based modeling: A case study and users 'guide. In:Sichman JS, Conte R, Gilbert N (eds). Multi-agent Systems and Agent-based Simulation. Heidelberg, Berlin: Springer, 1998;10-25.
    • (1998) Multi-agent Systems and Agent-based Simulation , pp. 10-25
    • Parunak, H.V.1    Savit, R.2    Riolo, R.L.3
  • 68
    • 77952477710 scopus 로고    scopus 로고
    • Development of a three dimensional multiscale computational model of the human epidermis
    • Adra S, Sun T, MacNeil S, et al. Development of a three dimensional multiscale computational model of the human epidermis. PLoS One 2010;5(1):e8511.
    • (2010) PLoS One , vol.5 , Issue.1 , pp. e8511
    • Adra, S.1    Sun, T.2    MacNeil, S.3
  • 69
    • 77949538052 scopus 로고    scopus 로고
    • Exploring hypotheses of the actions of TGF-beta 1 in epidermal wound healing using a 3D computational multiscale model of the human epidermis
    • Sun T, Adra S, Smallwood R, et al. Exploring hypotheses of the actions of TGF-beta 1 in epidermal wound healing using a 3D computational multiscale model of the human epidermis. PLoS One 2009;4(12):e8515.
    • (2009) PLoS One , vol.4 , Issue.12 , pp. e8515
    • Sun, T.1    Adra, S.2    Smallwood, R.3
  • 70
    • 34249663748 scopus 로고    scopus 로고
    • Multi-cell agent-based simulation of the microvasculature to study the dynamics of circulating inflammatory cell trafficking
    • Bailey AM, Thorne BC, Peirce SM. Multi-cell agent-based simulation of the microvasculature to study the dynamics of circulating inflammatory cell trafficking. Ann Biomed Eng 2007;35(6):916-36.
    • (2007) Ann Biomed Eng , vol.35 , Issue.6 , pp. 916-936
    • Bailey, A.M.1    Thorne, B.C.2    Peirce, S.M.3
  • 71
    • 14644430326 scopus 로고    scopus 로고
    • Simulating the impact of a molecular 'decision-process' on cellular phenotype and multicellular patterns in brain tumors
    • Athale C, Mansury Y, Deisboeck TS. Simulating the impact of a molecular 'decision-process' on cellular phenotype and multicellular patterns in brain tumors. J Theor Biol 2005;233(4):469-81.
    • (2005) J Theor Biol , vol.233 , Issue.4 , pp. 469-481
    • Athale, C.1    Mansury, Y.2    Deisboeck, T.S.3
  • 75
    • 85183430449 scopus 로고
    • Smoothed particle hydrodynamics - theory and application to non-spherical stars
    • Gingold RA, Monaghan JJ. Smoothed particle hydrodynamics - theory and application to non-spherical stars. MonNotRAstron Soc 1977;181(2):375-89.
    • (1977) MonNotRAstron Soc , vol.181 , Issue.2 , pp. 375-389
    • Gingold, R.A.1    Monaghan, J.J.2
  • 76
    • 14544289547 scopus 로고    scopus 로고
    • Multiscale flow simulations using particles
    • Koumoutsakos P. Multiscale flow simulations using particles. Annu Rev FluidMech 2005;37:457-87.
    • (2005) Annu Rev FluidMech , vol.37 , pp. 457-487
    • Koumoutsakos, P.1
  • 78
    • 0033515831 scopus 로고    scopus 로고
    • Simple lessons from complexity
    • Goldenfeld N, Kadanoff LP. Simple lessons from complexity. Science 1999;284(5411):87-9.
    • (1999) Science , vol.284 , Issue.5411 , pp. 87-89
    • Goldenfeld, N.1    Kadanoff, L.P.2
  • 79
    • 6144253216 scopus 로고
    • Strong inference - certain systematic methods of scientific thinking may produce much more rapid progress than others
    • Platt JR. Strong inference - certain systematic methods of scientific thinking may produce much more rapid progress than others. Science 1964;146(364):347-53.
    • (1964) Science , vol.146 , Issue.364 , pp. 347-353
    • Platt, J.R.1
  • 81
    • 79551647095 scopus 로고    scopus 로고
    • Computational discrete models of tissue growth and regeneration
    • Azuaje F. Computational discrete models of tissue growth and regeneration. Brief Bioinform 2011;12(1):64-77.
    • (2011) Brief Bioinform , vol.12 , Issue.1 , pp. 64-77
    • Azuaje, F.1
  • 82
    • 21244495584 scopus 로고    scopus 로고
    • Computational intelligence methods for rule-based data understanding
    • Duch W, Setiono R, Zurada JM. Computational intelligence methods for rule-based data understanding. Proc IEEE 2004;92(5):771-805.
    • (2004) Proc IEEE , vol.92 , Issue.5 , pp. 771-805
    • Duch, W.1    Setiono, R.2    Zurada, J.M.3
  • 83
    • 55549123480 scopus 로고    scopus 로고
    • Mining bioprocess data:opportunities and challenges
    • Charaniya S, Hu WS, Karypis G. Mining bioprocess data:opportunities and challenges. Trends Biotechnol 2008;26(12):690-9.
    • (2008) Trends Biotechnol , vol.26 , Issue.12 , pp. 690-699
    • Charaniya, S.1    Hu, W.S.2    Karypis, G.3
  • 84
    • 0034160040 scopus 로고    scopus 로고
    • On the optimization of classes for the assignment of unidentified reading frames in functional genomics programmes: the need for machine learning
    • Kell DB, King RD. On the optimization of classes for the assignment of unidentified reading frames in functional genomics programmes: the need for machine learning. Trends Biotechnol 2000;18(3):93-8.
    • (2000) Trends Biotechnol , vol.18 , Issue.3 , pp. 93-98
    • Kell, D.B.1    King, R.D.2
  • 85
    • 38349031393 scopus 로고    scopus 로고
    • Machine learning:a review of classification and combining techniques
    • Kotsiantis SB, Zaharakis ID, Pintelas PE. Machine learning:a review of classification and combining techniques. Artif Intell Rev 2006;26(3):159-90.
    • (2006) Artif Intell Rev , vol.26 , Issue.3 , pp. 159-190
    • Kotsiantis, S.B.1    Zaharakis, I.D.2    Pintelas, P.E.3
  • 86
    • 45949096079 scopus 로고    scopus 로고
    • Computational intelligence approaches for pattern discovery in biological systems
    • Fogel GB. Computational intelligence approaches for pattern discovery in biological systems. Brief Bioinform 2008;9(4):307-16.
    • (2008) Brief Bioinform , vol.9 , Issue.4 , pp. 307-316
    • Fogel, G.B.1
  • 87
    • 0032208720 scopus 로고    scopus 로고
    • The truth will come to light: Directions and challenges in extracting the knowledge embedded within trained artificial neural networks
    • Tickle AB, Andrews R, Golea M, et al. The truth will come to light: Directions and challenges in extracting the knowledge embedded within trained artificial neural networks. IEEETransNeuralNetw 1998;9(6):1057-68.
    • (1998) IEEETransNeuralNetw , vol.9 , Issue.6 , pp. 1057-1068
    • Tickle, A.B.1    Andrews, R.2    Golea, M.3
  • 88
    • 1942470073 scopus 로고    scopus 로고
    • Metabolomics by numbers: acquiring and understanding global metabolite data
    • Goodacre R, Vaidyanathan S, Dunn WB, et al. Metabolomics by numbers: acquiring and understanding global metabolite data. Trends Biotechnol 2004;22(5):245-52.
    • (2004) Trends Biotechnol , vol.22 , Issue.5 , pp. 245-252
    • Goodacre, R.1    Vaidyanathan, S.2    Dunn, W.B.3
  • 89
    • 33748509962 scopus 로고    scopus 로고
    • Simulating the hallmarks of cancer
    • Abbott RG, Forrest S, Pienta KJ. Simulating the hallmarks of cancer. Artif Life 2006;12(4):617-34.
    • (2006) Artif Life , vol.12 , Issue.4 , pp. 617-634
    • Abbott, R.G.1    Forrest, S.2    Pienta, K.J.3
  • 90
    • 31744445943 scopus 로고    scopus 로고
    • The effects of EGF-receptor density on multiscale tumor growth patterns
    • Athale CA, Deisboeck TS. The effects of EGF-receptor density on multiscale tumor growth patterns. J Theor Biol 2006;238(4):771-9.
    • (2006) J Theor Biol , vol.238 , Issue.4 , pp. 771-779
    • Athale, C.A.1    Deisboeck, T.S.2
  • 91
    • 28444444199 scopus 로고    scopus 로고
    • Evolutionary game theory in an agent-based brain tumor model: exploring the 'Genotype-Phenotype' link
    • Mansury Y, Diggory M, Deisboeck TS. Evolutionary game theory in an agent-based brain tumor model: exploring the 'Genotype-Phenotype' link. J Theor Biol 2006;238(1):146-56.
    • (2006) J Theor Biol , vol.238 , Issue.1 , pp. 146-156
    • Mansury, Y.1    Diggory, M.2    Deisboeck, T.S.3
  • 92
    • 84860451004 scopus 로고    scopus 로고
    • Agent-based economic models and econometrics
    • Chen S-H, Chang C-L, Du Y-R. Agent-based economic models and econometrics. Knowl Eng Rev 2012;27(2):187-219.
    • (2012) Knowl Eng Rev , vol.27 , Issue.2 , pp. 187-219
    • Chen, S.-H.1    Chang, C.-L.2    Du, Y.-R.3
  • 93
    • 4444350085 scopus 로고    scopus 로고
    • The epitheliome:agent-based modelling of the social behaviour of cells
    • Walker DC, Southgate J, Hill G, et al. The epitheliome:agent-based modelling of the social behaviour of cells. Biosystems 2004;76(1-3):89-100.
    • (2004) Biosystems , vol.76 , Issue.1-3 , pp. 89-100
    • Walker, D.C.1    Southgate, J.2    Hill, G.3
  • 94
    • 33749059757 scopus 로고    scopus 로고
    • An agent based model for real-time signaling induced in osteocytic networks by mechanical stimuli
    • Ausk BJ, Gross TS, Srinivasan S. An agent based model for real-time signaling induced in osteocytic networks by mechanical stimuli. J Biomech 2006;39(14):2638-46.
    • (2006) J Biomech , vol.39 , Issue.14 , pp. 2638-2646
    • Ausk, B.J.1    Gross, T.S.2    Srinivasan, S.3
  • 95
    • 33846542380 scopus 로고    scopus 로고
    • Agents in bioinformatics, computational and systems biology
    • Merelli E, Armano G, Cannata N, et al. Agents in bioinformatics, computational and systems biology. Brief Bioinform 2007;8(1):45-59.
    • (2007) Brief Bioinform , vol.8 , Issue.1 , pp. 45-59
    • Merelli, E.1    Armano, G.2    Cannata, N.3
  • 96
    • 33748313224 scopus 로고    scopus 로고
    • The emergence of geometric order in proliferating metazoan epithelia
    • Gibson MC, Patel AB, Nagpal R, et al. The emergence of geometric order in proliferating metazoan epithelia. Nature 2006;442(7106):1038-41.
    • (2006) Nature , vol.442 , Issue.7106 , pp. 1038-1041
    • Gibson, M.C.1    Patel, A.B.2    Nagpal, R.3
  • 97
    • 0026615712 scopus 로고
    • The simulation of the movement of fish schools
    • Huth A, Wissel C. The simulation of the movement of fish schools. JTheor Biol 1992;156(3):365-85.
    • (1992) JTheor Biol , vol.156 , Issue.3 , pp. 365-385
    • Huth, A.1    Wissel, C.2
  • 98
    • 0037744558 scopus 로고    scopus 로고
    • Analysis of habitat-selection rules using an individual-based model
    • Railsback SF, Harvey BC. Analysis of habitat-selection rules using an individual-based model. Ecology 2002;83(7):1817-30.
    • (2002) Ecology , vol.83 , Issue.7 , pp. 1817-1830
    • Railsback, S.F.1    Harvey, B.C.2
  • 99
    • 84873728265 scopus 로고    scopus 로고
    • Use of agent-based modelling to predict benefits of cleaner fish in controlling sea lice, Lepeophtheirus salmonis, infestations on farmed Atlantic salmon, Salmo salar L
    • Groner ML, Cox R, Gettinby G, et al. Use of agent-based modelling to predict benefits of cleaner fish in controlling sea lice, Lepeophtheirus salmonis, infestations on farmed Atlantic salmon, Salmo salar L. J Fish Dis 2013;36(3):195-208.
    • (2013) J Fish Dis , vol.36 , Issue.3 , pp. 195-208
    • Groner, M.L.1    Cox, R.2    Gettinby, G.3
  • 100
    • 34247961611 scopus 로고
    • Dynamic models of segregation
    • Schelling TC. Dynamic models of segregation. J Math Sociol 1971;1(2):143-86.
    • (1971) J Math Sociol , vol.1 , Issue.2 , pp. 143-186
    • Schelling, T.C.1
  • 101
    • 6344281115 scopus 로고    scopus 로고
    • Identifying control mechanisms of granuloma formation during M-tuberculosis infection using an agent-based model
    • Segovia-Juarez JL, Ganguli S, Kirschner D. Identifying control mechanisms of granuloma formation during M-tuberculosis infection using an agent-based model. J Theor Biol 2004;231(3):357-76.
    • (2004) J Theor Biol , vol.231 , Issue.3 , pp. 357-376
    • Segovia-Juarez, J.L.1    Ganguli, S.2    Kirschner, D.3
  • 102
    • 0034614637 scopus 로고    scopus 로고
    • The hallmarks of cancer
    • Hanahan D, Weinberg RA. The hallmarks of cancer. Cell 2000;100(1):57-70.
    • (2000) Cell , vol.100 , Issue.1 , pp. 57-70
    • Hanahan, D.1    Weinberg, R.A.2
  • 103
    • 33748126338 scopus 로고    scopus 로고
    • Discovery of cancer vaccination protocols with a genetic algorithm driving an agent based simulator
    • Lollini P-L, Motta S, Pappalardo F. Discovery of cancer vaccination protocols with a genetic algorithm driving an agent based simulator. BMC Bioinformatics 2006;7:352.
    • (2006) BMC Bioinformatics , vol.7 , pp. 352
    • Lollini, P.-L.1    Motta, S.2    Pappalardo, F.3
  • 104
    • 84864091175 scopus 로고    scopus 로고
    • Risk, individual differences, and environment: an agent-based modeling approach to sexual risk-taking
    • Nagoski E, Janssen E, Lohrmann D, et al. Risk, individual differences, and environment: an agent-based modeling approach to sexual risk-taking. Arch Sex Behav 2012;41(4):849-860.
    • (2012) Arch Sex Behav , vol.41 , Issue.4 , pp. 849-860
    • Nagoski, E.1    Janssen, E.2    Lohrmann, D.3
  • 105
    • 84859418664 scopus 로고    scopus 로고
    • Toward a multi-scale computational model of arterial adaptation in hypertension: verification of a multi-cell agent based model
    • Thorne BC, Hayenga HN, Humphrey JD, et al. Toward a multi-scale computational model of arterial adaptation in hypertension: verification of a multi-cell agent based model. Front Physiol 2011;2:20.
    • (2011) Front Physiol , vol.2 , pp. 20
    • Thorne, B.C.1    Hayenga, H.N.2    Humphrey, J.D.3
  • 106
    • 84876125744 scopus 로고    scopus 로고
    • Cells as state machines:cell behavior patterns arise during capillary formation as a function of BDNF and VEGF
    • Long BL, Rekhi R, Abrego A, et al. Cells as state machines:cell behavior patterns arise during capillary formation as a function of BDNF and VEGF. J Theor Biol 2013;326:43-57.
    • (2013) J Theor Biol , vol.326 , pp. 43-57
    • Long, B.L.1    Rekhi, R.2    Abrego, A.3
  • 107
    • 80053157310 scopus 로고    scopus 로고
    • An agent-based model for the investigation of neovascularization within porous scaffolds
    • Artel A, Mehdizadeh H, Chiu YC, et al. An agent-based model for the investigation of neovascularization within porous scaffolds. Tissue Eng Part A 2011;17(17-18):2133-41.
    • (2011) Tissue Eng Part A , vol.17 , Issue.17-18 , pp. 2133-2141
    • Artel, A.1    Mehdizadeh, H.2    Chiu, Y.C.3
  • 108
    • 84878487132 scopus 로고    scopus 로고
    • Hybrid equation/agentbased model of ischemia-induced hyperemia and pressure ulcer formation predicts greater propensity to ulcerate in subjects with spinal cord injury
    • Solovyev A, Mi Q, Tzen YT, et al. Hybrid equation/agentbased model of ischemia-induced hyperemia and pressure ulcer formation predicts greater propensity to ulcerate in subjects with spinal cord injury. PLoS Comput Biol 2013; 9(5):e1003070.
    • (2013) PLoS Comput Biol , vol.9 , Issue.5 , pp. e1003070
    • Solovyev, A.1    Mi, Q.2    Tzen, Y.T.3
  • 109
    • 0020456385 scopus 로고
    • How does extracellularmatrix direct gene-expression
    • Bissell MJ, Hall HG, Parry G. How does extracellularmatrix direct gene-expression. J Theor Biol 1982;99(1):31-68.
    • (1982) J Theor Biol , vol.99 , Issue.1 , pp. 31-68
    • Bissell, M.J.1    Hall, H.G.2    Parry, G.3


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