Programming the Emergence in Morphogenetically Architected Complex Systems

Acta Biotheoretica

Volumn 63, Issue 3, 2015, Pages 295-308

  Varenne, Franck ^a,b   Chaigneau, Pierre ^c   Petitot, Jean ^d   Doursat, René ^e,f  

^a Paris Sorbonne University   (France)

^b UNIVERSITÉ DE ROUEN   (France)

^c CNRS Université Paris Diderot Sorbonne Paris Cité   (France)

^d ÉCOLE DES HAUTES ÉTUDES EN SCIENCES SOCIALES   (France)

^e CNRS   (France)

^f CNRS   (France)

Author keywords

Artificial life; Bio inspiration; Complex systems; Functional form; Morphogenesis; Morphogenetic engineering; Pattern formation; Self architected systems; Swarm robotics; Synthetic biology; Weak emergence

Indexed keywords

BIOENGINEERING; COMPUTER SIMULATION; EMERGENCE; MORPHOLOGY; NUMERICAL MODEL; ROBOTICS; SELF ORGANIZATION;

BACTERIA (MICROORGANISMS);

PROTEIN;

ANIMAL; BIOLOGY; BIOMIMETICS; BIOTECHNOLOGY; CHEMISTRY; EMBRYO DEVELOPMENT; HUMAN; ISOPTERA; MORPHOGENESIS; PHYSIOLOGY; PROCEDURES; ROBOTICS; SYNTHETIC BIOLOGY;

ANIMALS; BIOLOGY; BIOMIMETICS; BIOTECHNOLOGY; EMBRYONIC DEVELOPMENT; HUMANS; ISOPTERA; MORPHOGENESIS; PROTEINS; ROBOTICS; SYNTHETIC BIOLOGY;

EID: 84938987023     PISSN: 00015342     EISSN: 15728358     Source Type: Journal    
DOI: 10.1007/s10441-015-9262-z     Document Type: Article

References (45)

1. Ball P (1999) The self-made tapestry: pattern formation in nature. Oxford Univ Press, Oxford
2. Beal J (2011) Functional blueprints: an approach to modularity in grown systems. Swarm Intell 5:257–281
3. Bedau MA (1997) Weak emergence. Noûs 31:375–399
4. Bedau MA (1999) Can unrealistic computer models illuminate theoretical biology? In: Proceedings of the 1999 International Genetic and Evolutionary Computation Conference (GECCO 1999), pp 20–23
5. Bedau MA (2002) Downward causation and the autonomy of weak emergence. Principia 6:5–50
6. Bonabeau E et al (1998) A model for the emergence of pillars, walls and royal chambers in termite nests. Philos Trans R Soc B 353:1561–1576
7. Brodu N (2009) A synthesis and a practical approach to complex systems. Complexity 15:36–60
8. Camazine S et al (2003) Self-organization in biological systems. Princeton Univ Press, Princeton
9. Castro-González C et al (2014) A digital framework to build, visualize and analyze a gene expression atlas with cellular resolution in zebrafish early embryogenesis. Plos Comput Biol 10(e1003):670
10. Crutchfield JP (1994) The calculi of emergence: computation, dynamics and induction. Phys D 75:11–54
11. Delile J, Doursat R, Peyriéras N (2013) Computational modeling and simulation of animal early embryogenesis with the MecaGen platform. In: Computational systems biology 2. Academic Press, London, pp 359–405
12. Dill KA, MacCallum JL (2012) The protein-folding problem, 50 years on. Science 338(6110):1042–1046
13. Dorigo M et al (2013) Swarmanoid: a novel concept for the study of heterogeneous robotic swarms. IEEE Robot Autom Mag 20:60–71
14. Doursat R (2008) Organically grown architectures: creating decentralized, autonomous systems by embryomorphic engineering. In: Organic computing. Springer, Berlin, pp 167–199
15. Doursat R, Sánchez C (2014) Growing fine-grained multicellular robots. Soft Robot 1:110–121
16. Doursat R, Sayama H, Michel O (2009) Proceedings of the 1st international morphogenetic engineering workshop (MEW 2009). http://iscpif.fr/mew2009
17. Doursat R, Sayama H, Michel O (2013) A review of morphogenetic engineering. Nat Comput 12:517–535
18. Dowek G (2011) Proofs and algorithms: an introduction to logic and computability. Springer, Berlin
19. Giavitto JL, Michel O (2002) The topological structures of membrane computing. Fund Inf 49:123–145
20. Godfrey-Smith P (2004) Genes do not encode information for phenotypic traits. In: Contemporary debates in philosophy of science. Blackwell Publishing, Oxford, pp 275–289
21. Holland JH (2012) Signals and boundaries: building blocks for complex adaptive systems. MIT Press, Cambridge
22. Humphreys P (1997) How properties emerge. Philos Sci 64:1–17
23. Huneman P (2008a) Emergence and adaptation. Minds Mach 18:493–520
24. Huneman P (2008b) Emergence made ontological? computational versus combinatorial approaches. Philos Sci 75:595–607
25. Kim J (1999) Making sense of emergence. Philos Stud 95:3–36
26. Kube CR, Zhang H (1993) Collective robotics: from social insects to robots. Adapt Behav 2:189–218
27. Ladyman J, Lambert J, Wiesner K (2013) What is a complex system? Eur J Philos Sci 3:33–67
28. Langton CG (1989) Artificial life. Addison-Wesley, Reading
29. Millikan RG (1984) Language, thought and other biological categories. MIT Press, Cambridge
30. O’Grady R, Christensen AL, Dorigo M (2009) SWARMORPH: multirobot morphogenesis using directional self-assembly. IEEE Trans Robot 25:738–743
31. Pascalie J et al. (2015) Spatial computing in synthetic bioware. In: Proceedings of the European Conference on Artificial Life (ECAL 2015)
32. Pattee H (1995) Evolving self-reference: matter, symbols and semantic closure. Commun Cognit 12:9–27
33. Petitot J (2003) Modèles de structures émergentes dans les systèmes complexes. In: Proceedings of the annual meeting of the International Academy of the Philosophy of Science, pp 57–71
34. Petitot J (2011) The morphogenetic models of René Thom. In: Morphogenesis. Springer, Berlin, pp 273–281
35. Petitot J (2013) Complexity and self-organization in Turing. In: The legacy of A.M. Turing. Franco Angeli, Milano, pp 149–182
36. Peyriéras N (2011) Animal morphogenesis. In: Morphogenesis. Springer, Berlin, pp 167–188
37. Sartenaer O (2014) Synchronic vs. diachronic emergence: a reappraisal. Eur J Philos Sci 5:31–54
38. Sayama H (2014) Four classes of morphogenetic collective systems. In: Proceedings of the Fourteenth International Conference on the Simulation and Synthesis of Living Systems (ALife XIV), pp 105–114
39. Shalizi CR (2006) Methods and techniques of complex systems science: an overview. In: Complex systems science in biomedicine. Springer, Berlin, pp 33–114
40. Thom R (1994) Structural stability and morphogenesis. Advanced books classics. Westview Press, Boulder
41. Thompson P (2006) A role for mathematical models in formalizing self-organizing systems. In: Self-organization and emergence in life sciences. Springer, Berlin, pp 301–313
42. Turing AM (1952) The chemical basis of morphogenesis. Philos Trans R Soc B 237:37–72
43. Turner JS (2000) The extended organism: the physiology of animal-built structures. Harvard Univ Press, Cambridge
44. Varenne F (2009) Models and simulations in the historical emergence of the science of complexity. In: From system complexity to emergent properties. Springer, Berlin, pp 3–21
45. Varenne F (2013) Chains of reference in computer simulations. Tech. Rep. WP-2013-51, FMSH Working Paper, http://www.fmsh.fr/en/c/4002