A boolean network modelling of receptor mosaics relevance of topology and cooperativity

Journal of Neural Transmission

Volumn 114, Issue 1, 2007, Pages 77-92

  Agnati, L F ^a   Guidolin, D ^b   Leo, G ^a   Fuxe, K ^c  

^a UNIVERSITY OF MODENA AND REGGIO EMILIA   (Italy)

^b UNIVERSITY OF PADOVA   (Italy)

^c KAROLINSKA INSTITUTE   (Sweden)

Author keywords

Boolean networks; Cooperativity; Engrams; GPCR; Topology

Indexed keywords

G PROTEIN COUPLED RECEPTOR; MEMBRANE RECEPTOR;

CELL MEMBRANE; COMPUTER SIMULATION; CONFERENCE PAPER; EXTRACELLULAR SPACE; HYPOTHESIS; LEARNING; MATHEMATICAL MODEL; MEMORY; NEUROBIOLOGY; PRIORITY JOURNAL; PROTEIN AGGREGATION; PROTEIN ANALYSIS; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; THEORETICAL STUDY;

ALLOSTERIC REGULATION; ANIMALS; BRAIN; CELL MEMBRANE; HUMANS; NEURAL NETWORKS (COMPUTER); NEURONS; PROTEIN CONFORMATION; PROTEIN SUBUNITS; RECEPTOR CROSS-TALK; RECEPTORS, CELL SURFACE; SIGNAL TRANSDUCTION;

EID: 33845902781     PISSN: 03009564     EISSN: 14351463     Source Type: Journal    
DOI: 10.1007/s00702-006-0567-6     Document Type: Conference Paper

References (76)

1. LF Agnati K Fuxe 2000 Volume transmission as a key feature of information handling in the central nervous system possible new interpretative value of the Turing's B-type machine Prog Brain Res 125 3 19
2. LF Agnati K Fuxe I Zini P Lenzi T Hökfelt 1980 Aspects on receptor regulation and isoreceptor identification Med Biol 58 182 187
3. LF Agnati K Fuxe M Zoli C Rondanini SO Ögren 1982 New vistas on synaptic plasticity: the receptor mosaic hypothesis of the engram Med Biol 58 182 187
4. LF Agnati K Fuxe F Benfenati N Battistini I Zini M Camurri T Hökfelt 1984 Postsynaptic effects of neuropeptide comodulators at central monoamine synapses E Usdin Catecholamines: neuropharmacology and central nervous system - Theoretical aspects Alan R Liss Inc New York 191 198
5. LF Agnati S Ferré P Cortelli K Fuxe 1995 A brief appraisal on some aspects of the receptor-receptor interaction Neurochem Int 27 139 146
6. LF Agnati L Santarossa F Benfenati M Ferri A Morpurgo B Apolloni K Fuxe 2002 Molecular basis of learning and memory: modelling based on receptor mosaics B Apolloni F Kurfes From synapses to Rules Kluwer Academic/Plenum Publishers New York 165 196
7. LF Agnati S Ferré C Lluis R Franco K Fuxe 2003a Molecular mechanisms and therapeutical implications of intramembrane receptor/receptor interactions among heptahelical receptors with examples from the striatopallidal GABA neurons Pharm Rev 55 509 550
8. Agnati LF, Franzen O, Ferré S, Leo G, Franco R, Fuxe K (2003b) Possible role of intramembrane receptor-receptor interactions in memory and learning via formation of long-lived heteromeric complexes: focus on motor learning in the basal ganglia. J Neural Transm [Suppl 65]: 1-28
9. LF Agnati S Ferré G Leo C Lluis EI Canela R Franco K Fuxe 2004a On the molecular basis of the receptor mosaic hypothesis of the Engram J Mol Cell Neurobiol 24 501 516
10. LF Agnati L Santarossa S Genedani EI Canela G Leo R Franco A Woods C Lluis S Ferré K Fuxe 2004b On the nested hierarchical organization of CNS: basic characteristics of neuronal molecular networks P Erdi A Esposito M Marinaro S Scarpetta Computational Neuroscience: cortical dynamics, Lecture Notes in Computer Sciences Springer Berlin Heidelberg New York 24 54
11. LF Agnati AO Tarakanov S Ferré K Fuxe D Guidolin 2005a Receptor-receptor interactions, receptor mosaics, and basic principles of molecular network organization. Possible implications for drug development J Mol Neurosci 26 193 208
12. Agnati LF, Zunarelli E, Genedani S, Fuxe K (2005b) On the existence of a global molecular network enmeshing the whole central nervous system: physiological and pathological implications. Curr Protein Pept Sci (in press)
13. M Bouvier 2001 Oligomerization of G-protein-coupled transmitter receptors Nature Rev Neuroscience 2 274 286
14. PW Bridgman 1927 The logic of modern physics MacMillan London
15. 1b- Adrenoceptor Mol Pharmacol 66 1123 1137
16. JP Changeux S Dehaene 1992 Neuronal models of cognitive functions associated with the prefrontal cortex Y Christen P Churchland Neurophilosophy and Alzheimer's disease Springer-Verlag New York 60 79
17. JP Changeux SJ Edelstein 2005 Allosteric mechanisms of signal transduction Science 308 1424 1428
18. Du Bois-Reymond E (1891) Uber die Grenzen des Naturrkennens - Leipzig. Verlag von Veit and Comp
19. TAJ Duke D Bray 1999 Heightened sensitivity of a lattice of membrane receptors Proc Natl Acad Sci USA 96 10104 10108
20. TAJ Duke N Le Novère D Bray 2001 Conformational spread in a ring of proteins: a stochastic approach to allostery J Mol Biol 308 541 553
21. T Durroux 2005 Principles: a model for the allosteric interactions between ligand binding sites within a dimeric GPCR Trends Pharmacol Sci 26 376 384
22. JJ Falke RB Bass SL Butler SA Chervitz MA Danielson 1997 The two-components signaling pathway of bacterial chemotaxis: a molecular view of signal transduction by receptors, kinases, and adaptation enzymes Annu Rev Cell Dev Biol 13 457 512
23. R Franco S Ferré LF Agnati M Torvinen S Gines J Hillion V Casado P Lledo M Zoli C Lluis K Fuxe 2000 Evidence for adenosine/dopamine receptor interaction: indications for heteromerization Neuropsychopharmacology 23 50 59
24. H Frauenfelder SG Sligar PG Wolynes 1991 The energy landscapes and motions of proteins Science 254 1598 1603
25. K Fuxe LF Agnati 1985 Receptor-receptor interactions in the central nervous system. A new integrative mechanism in synapses Med Res Rev 5 441 482
26. K Fuxe LF Agnati SO Ögren K Andersson F Benfenati 1983 Neurobiology of central monoamine neurotransmission: functional neuroanatomy and noradrenaline and 5-hydroxytryptamine involvement in learning and memory R Caputto C Ajmone Neural transmission, learning and memory Raven Press New York 237 256
27. K Fuxe LF Agnati K Jacobsen J Hillion M Canals M Torvinen B Tinner-Staines W Staines D Rosin A Terasmaa P Popoli G Leo V Vergoni C Lluis F Ciruela R Franco S Ferré 2003 Receptor heteromerization in adenosine A2A receptor signaling: relevance for striatal function and Parkinson's disease Neurology 61 S19 S23
28. U Gether 2000 Uncovering molecular mechanisms involved in activation of G protein-coupled receptors Endocrine Rev 21 90 113
29. PR Gouldson C Higgs RE Smith MK Dean GV Gkoutos CA Reynolds 2000 Dimerization and domain swapping in G-protein-coupled receptors: a computational study Neuropsychopharmacology 23 60 77
30. I Gozes 2005 Receptor-receptor interactions among Heptaspanning membrane receptors: from structure to function J Mol Neurosci 26 109 306
31. VV Gurevich EV Gurevich 2005 The molecular acrobatics of arrestin activation Trends Pharmacol Sci 25 105 111
32. DO Hebb 1949 The Organization of Behaviour Wiley New York
33. JJ Hopfield 1984 Neurons with graded response have collective computational properties like those of two-state neurons Proc Natl Acad Sci USA 81 3088 3092
34. YJ Huang GT Montelione 2005 Protein flex to function Nature 438 36 37
35. AM Huerta H Salgado D Thieffry J Collado-Vides 1998 Nucl Acids Res 26 55 59
36. EK Jaffe 2005 Morpheeins - a new structural paradigm for allosteric regulation Trends in Biochemical Sciences 30 490 497
37. ER Kandel 1979 Cellular insights into behaviour and learning Harvey Lectures 73 19 92
38. SA Kauffman 1984 Emergent properties in random complex automata Physica D 10D 146 156
39. SA Kauffman 1990 Requirements for evolvability in complex systems: orderly dynamics and frozen components WH Zurek Complexity, Entropy and the physics of Information Addison-Wesley Redwood City, CA 151 192
40. SA Kauffman 1993 The origin of order Oxford University Press New York
41. SA Kauffman 1995 At home in the universe Oxford University Press Oxford
42. SA Kauffman C Peterson B Samuelsson C Troein 2004 Genetic networks with canalyzing Boolean rules are always stable PNAS 101 17102 17107
43. T Kenakin 2005 The physiological role of constitutive receptor activity Trends Pharmacol Sci 25 603 605
44. DE Koshland K Hamadani 2002 Proteomics and models for enzyme cooperativity J Biol Chem 49 46841 46844
45. C Langton 1986 Studying artificial life with cellular automata Physica D 22 120 149
46. TI Lee NJ Rinaldi F Robert DT Odom Z Bar-Josef GK Gerber NM Hannet CT Harbison CM Thompson I Simon 2002 Transcriptional regulatory network in Saccharomyces cerevisiae Science 298 799 804
47. RJ Lefkowitz SK Shenoy 2005 Transduction of receptor signals by β-arrestins Science 308 512 517
48. K Li MP Hornshaw J van Minnen K-H Smalla ED Gundelfinger AR Smit 2005 Organelle proteomics of rat synaptic proteins: Correlation-profiling by isotope-coded affinity tagging in conjunction with liquid chromatography-tandem mass spectrometry to reveal post-synaptic density specific proteins J Proteome Res 4 725 733
49. W Li NH Packard 1990 Structure of the elementary cellular automata rule space Complex Systems 4 281 297
50. Y Liang D Fotiadis S Filipek DA Saperstein K Palczewski A Engel 2002 Organization of the G-protein coupled receptors rhodopsin and opsin in native membranes J Biol Chem 278 21655 21662
51. RC Malenka RA Nicoll 1999 Long-term potentiation: a decade of progress? Science 285 1870 1874
52. WS McCulloch WA Pitts 1943 A logical calculus of the ideas immanent in the nervous activity Bull Math Biophys 5 115 137
53. MA Menze N Hellmann H Decker MK Grieshaber 2005 Allosteric models for multimeric proteins: oxygen-linked effector binding in hemocyanin Biochemistry 44 10328 10338
54. G Milligan 2001 Oligomerization of G-protein coupled receptors J Cell Sci 14 1265 1271
55. G Milligan S Wilson JF Lopez-Gimenez 2005 The specificity and molecular basis of α1-adrenoceptor and CXCR chemokine receptor dimerization J Mol Neurosci 26 161 168
56. ML Parmentier L Prézeau J Bockaert JP Pin 2002 A model for the functioning of family 3 GPCRs Trends Pharmacol Sci 23 268 274
57. ET Powers DL Powers 2003 A perspective on mechanisms of protein tetramer formation Biophys J 85 3587 3599
58. JE Rash A Pereda N Karnasawa CS Furman T Yasumura KGV Davidson FE Dudek C Olson X Li JI Nagi 2004 High-resolution proteomic mapping in the vertebrate central nervous system: Close proximity of connexin35 to NMDA glutamate receptor clusters and co-localization of connexin36 with immunoreactivity for zonula occludens protein-1 (ZO-1) J Neurocytol 33 131 151
59. R Rinaldi G Maruccio A Biasco P Visconti V Arima R Cingolati 2003 Protein-based three terminal electronic device Ann NY Acad Sci 1006 187 197
60. T Schöneberg A Schulz H Biebermann T Hermsdorf H Römpler K Sangkuhl 2004 Mutant G-protein coupled receptors as a cause of human diseases Pharm Ther 104 173 206
61. HC Seeman 2005 Structural DNA technology: an overview Methods Mol Biol 303 143 166
62. Y Shi 2000 Adaptive ising model and bacterial chemotactic receptor network Europhys Lett 59 113 119
63. Y Shi T Duke 1998 Cooperative model of bacterial sensing Phys Rev E 58 6399 6406
64. PG Strange 1999 G-protein coupled receptors: conformation and states Biochem Pharmacol 58 1081 1088
65. PG Strange 2005 Oligomers of D2 dopamine receptors: evidence from ligand binding J Mol Neurosci 26 155 160
66. A Tarakanov D Dasgupta 2000 A formal model of an artificial immune system Biosystems 55 151 158
67. AO Tarakanov VA Skormin SP Sokolova 2003 Immunocomputing: Principles and Applications Springer New York
68. MB Turner 1965 Philosophy and the science of behaviour Appleton Century-Crofts New York
69. KE van Holde KI Miller E van Olden 2000 Allostery in very large molecular assemblies Biophys Chem 86 165 172
70. J von Neumann 1966 Theory of self-reproducing automata AW Burks 1949 Univ. of Illinois Lectures on theory and organization of complicated automata University of Illinois Press Urbana
71. Wasserman 1990 PD. Neural Computing: Theory and Practice Van Nostrad Reinhold New York
72. S Wolfram 1986 Theory and application of cellular automata World Scientific Singapore
73. A Wuensche 2003 Discrete Dynamics Lab: tools for investigating cellular automata and discrete dynamical networks Kybernetes 32 77 99
74. Wuensche A, Lesser M (1992) The global dynamics of cellular automata - An atlas of basin of attraction fields of one-dimensional cellular automata. Addison Wesley, Reading
75. J Wyman 1969 Possible allosteric effects in extended biological systems J Mol Biol 39 523 538
76. M Zoli D Guidolin K Fuxe LF Agnati 1996 The receptor mosaic hypothesis of the engram: possible relevance of Boolean network modeling Int J Neural Systems 7 363 368