Dynamic causal modelling: A critical review of the biophysical and statistical foundations

NeuroImage

Volumn 58, Issue 2, 2011, Pages 312-322

  Daunizeau, J ^a,b   David, O ^c,d,e   Stephan, K E ^a,b  

^a UNIVERSITY COLLEGE LONDON   (United Kingdom)

^b UNIVERSITY OF ZURICH   (Switzerland)

^c GRENOBLE INSTITUT DES NEUROSCIENCES   (France)

^d UNIV GRENOBLE ALPES   (France)

^e GRENOBLE UNIVERSITY HOSPITAL   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BIOPHYSICS; BRAIN FUNCTION; BRAIN REGION; DYNAMIC CAUSAL MODELLING; ELECTROENCEPHALOGRAPHY; ELECTROMAGNETIC FIELD; EXCITATORY POSTSYNAPTIC POTENTIAL; FUNCTIONAL MAGNETIC RESONANCE IMAGING; HUMAN; INFORMATION PROCESSING; LONG TERM POTENTIATION; NERVE CELL NETWORK; NEUROBIOLOGY; NEUROIMAGING; PREDICTION; PRIORITY JOURNAL; REVIEW; STATISTICAL ANALYSIS; STATISTICAL MODEL; STATISTICAL PARAMETERS; STIMULUS RESPONSE;

BAYES THEOREM; BIOPHYSICS; BRAIN MAPPING; CAUSALITY; DATA INTERPRETATION, STATISTICAL; ELECTROENCEPHALOGRAPHY; HUMANS; IMAGE PROCESSING, COMPUTER-ASSISTED; MAGNETIC RESONANCE IMAGING; MAGNETOENCEPHALOGRAPHY; MODELS, NEUROLOGICAL; MODELS, STATISTICAL; REPRODUCIBILITY OF RESULTS;

EID: 80051748187     PISSN: 10538119     EISSN: 10959572     Source Type: Journal    
DOI: 10.1016/j.neuroimage.2009.11.062     Document Type: Review

References (90)

1. Airan R.D., Hu E.S., Vijaykumar R., Roy M., Meltzer L.A., Deisseroth K. Integration of light-controlled neuronal firing and fast circuit imaging. Curr. Opin. Neurobiol. 2007, 17(5):587-592.
2. Amari S. Dynamics of pattern formation in lateral inhibition type neural fields. Biol. Cybern. 1977, 27:77-87.
3. Beal, M., (2003), Variational algorithms for approximate Bayesian inference. PhD thesis, Gatsby Computational Unit, University College London, UK.
4. Breakspear M., Roberts J.A., Terry J.R., Rodrigues S., Mahant N., Robinson P.A. A unifying explanation of primary generalized seizures through nonlinear brain modeling and bifurcation analysis. Cereb. Cortex 2006, 16:1296-1313.
5. Bressler S.L., Seth A.K. Wiener-Granger causality: a well-established methodology. Neuroimage. 2011, 50:323-329. (this issue).
6. Büchel C., Friston K.J. Modulation of connectivity in visual pathways by attention: cortical interactions evaluated with structural equation modelling and fMRI. Cereb. Cortex 1997, 7:768-778.
7. Buxton R.B., Wong E.C., Franck L.R. Dynamics of blood flow and oxygenation changes during brain activation: the Balloon model. MRM 1998, 39:855-864.
8. Chen C.C., Kiebel S.J., Friston K.J. Dynamic causal modelling of induced responses. Neuroimage 2008, 41:1293-1312.
9. Chumbley J., Friston K.J. A Metropolis-Hastings algorithms for dynamic causal models. Neuroimage 2007, 38:478-487.
10. Daunizeau Grova C., Marrelec G., Mattout J., Jbabdi S., Pélégrini-Issac M., Lina J.M., Benali H. Symmetrical event-related EEG/fMRI information fusion in a variational Bayesian framework. NeuroImage 2007, 3:69-87.
11. Daunizeau J., Kiebel S.J., Friston K.J. Dynamic causal modelling of distributed electromagnetic responses. Neuroimage 2009, 47:590-601.
12. Daunizeau J., Friston K.J., Kiebel S.J. Variational Bayesian identification and prediction of stochastic nonlinear dynamic causal models. Physica. D. 2009, 238:2089-2118.
13. Daunizeau, J., Preuschoff, K., Friston, K.J., Stephan, K.E., in preparation. Optimizing experimental design for Bayesian model comparison.
14. David O. Dynamic causal models and autopoietic systems. Biol. Res. 2007, 40:487-502.
15. David O., Friston K.J. A neural mass model for MEG/EEG: coupling and neuronal dynamics. Neuroimage 2003, 20:1743-1755.
16. David O., Harrison L., Friston K.J. Modelling event-related responses in the brain. Neuroimage 2005, 25:756-770.
17. David O., Kiebel S.J., Harrison L., Mattout J., Kilner J., Friston K.J. Dynamic causal modelling of evoked responses in EEG and MEG. Neuroimage 2006, 30:1255-1272.
18. David O., Guillemain I., Saillet S., Reyt S., Deransart C., Segebarth C., Depaulis A. Identifying neural drivers with functional MRI: an electrophysiological validation. Plos Biol. 2008, 6(12):e315.
19. David O., Wozniak A., Minotti L., Kahane P. Precital short-term plasticity induced by 1 Hz stimulation. Neuroimage 2008, 39:1633-1646.
20. David O. fMRI connectivity, meaning and empiricism: comments on: Roebroeck et al. The identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. Neuroimage. 2011, 58:306-309. (this issue).
21. Deco G., Jirsa V.K., Robinson P., Breakspear M., Friston K.J. The dynamic brain: from spiking neurons to neural masses and cortical fields. Plos Comp. Biol. 2008, 4(8):e1000092.
22. Den Ouden, H.E.M., Daunizeau, J., Roiser, J., Friston, K.J., Stefphan, K.E., in revision. Striatal prediction error modulates cortical coupling.J. Neurosci.
23. Egan F., Matthews R.J. Doing cognitive neuroscience: a third way. Synthese 2006, 153:377-391.
24. Fastenrath M., Friston K.J., Kiebel S.J. Dynamic causal modelling for M/EEG: spatial and temporal symmetry constraints. Neuroimage 2008, 44:154-163.
25. Felleman D.J., Van Essen D.C. Distributed hierarchical processing in the primate cerebral cortex. Cereb. Cortex 1991, 1:1-47.
26. Friston K. Beyond phrenology: what can neuroimaging tell us about distributed circuitry?. Annu. Rev. Neurosci. 2002, 25:221-250.
27. Friston K.J. Bayesian estimation of dynamical systems: an application to fMRI. Neuroimage 2002, 16:513-530.
28. Friston K.J., Buchel C., Fink G.R., Morris J., Rolls E., Dolan R.J. Psychophysiological and modulatory interactions in neuroimaging. Neuroimage 1997, 6:218-229.
29. Friston K.J., Mechelli A., Turner R., Price C.J. Nonlinear responses in fMRI: the Balloon model, Volterra kernels, and other hemodynamics. Neuroimage 2000, 12:466-477.
30. Friston K.J., Harrison L., Penny W.D. Dynamic causal modelling. Neuroimage 2003, 19:1273-1302.
31. Statistical Parametric Mapping 2007, Academic Press. K.J. Friston, J.T. Ashburner, S.J. Kiebel, T.E. Nichols, W.D. Penny (Eds.).
32. Friston K.J., Mattout J., Trujillo-Barreto Ashburner J., Peeny W. Variational free energy and the Laplace approximation. Neuroimage 2007, 34:220-234.
33. Friston K.J., Trujillo-Barreto N.J., Daunizeau J. DEM: a variational treatment of dynamical systems. Neuroimage 2008, 42:849-885.
34. Friston K.J. Dynamic causal modelling and Granger causality: Comments on: The identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. Neuroimage. 2011, 58:303-305. (this issue).
35. Friston K.J., Valdes-Sosa Effective connectivity: influence, causality and mathematical modelling. Neuroimage. 2011, 58:339-361. (this issue).
36. Garrido M.I., Kilner J., Kiebel S.J., Stephan K.E., Friston K.J. Dynamic causal modelling of evoked potentials: a reproducibility study. Neuroimage 2007, 36:571-580.
37. Göbel W., Kampa B.M., Helmchen F. Imaging cellular network dynamics in three dimensions using fast 3D laser scanning. Nat. Methods 2007, 4(1):73-79.
38. Gray M.A., Minati L., Harrison N.A., Gianaros P.J., Napadow V., Critchley H.D. Physiological recordings: basic concepts and implementation during functional magnetic resonance imaging. Neuroimage 2009, 47:1105-1115.
39. Greicus M.D., Krasnow B., Reiss A.L., Menon V. Functional connectivity in the resting brain: a network analysis of the default mode hypothesis. Proc. Natl. Acad. Sci. 2002, 100:253-528.
40. Harrison L., Penny W.D., Friston K. Multivariate autoregressive modeling of fMRI time series. Neuroimage 2003, 19:1477-1491.
41. Harrison L., David O., Friston K.J. Stochastic models of neuronal dynamics. Philos. Trans. R. Soc. Lond. B. Biol. Sci. 2005, 1457:1075-1091.
42. Horwitz B., Tagamets M.A., McIntosh A.R. Neural modeling, functional brain imaging, and cognition. Trends Cogn. Sci. 1999, 3:91-98.
43. Iadecola C., Nedergaard M. Glial regulation of the cerebral microvasculature. Nat. Neurosci. 2007, 10:1369-1376.
44. Jansen B.H., Rit V.G. Electroencephalogram and visual evoked potential generation in a mathematical model of coupled cortical columns. Biol. Cybern. 1995, 73:357-366.
45. Kiebel S.J., David O., Friston K.J. Dynamic causal modelling of evoked responses in EEG/MEG with lead-field parameterization. Neuroimage 2006, 30:1273-1284.
46. Kiebel S.J., Kloppel S., Weiskopf N., Friston K.J. Dynamic causal modelling: a generative model of slice timing in fMRI. Neuroimage 2007, 34:1487-1496.
47. Kiebel S.J., Garrido M., Friston K.J. Dynamic causal modelling of evoked responses: the role of intrinsic connections. Neuroimage 2007, 36:332-345.
48. Larkum M.E., Senn W., Lüscher H.R. Top-down dendritic input increases the gain of layer 5 pyramidal neurons. Cereb. Cortex 2005, 14(10):1059-1070.
49. London M., Häusser M. Dendritic computation. Annu. Rev. Neurosci. 2005, 28:503-532.
50. Magee J.C., Johnston D. A synaptically controlled, associative signal for Hebbian plasticity in hippocampal neurons. Science 1997, 275:209-213.
51. Marreiros A.C., Kiebel S.J., Friston K.J. Dynamic causal model for fMRI: a two-state model. Neuroimage 2008, 39:269-278.
52. Marreiros A.C., Daunizeau J., Kiebel S., Friston K.J. Population dynamics: variance and the sigmoid activation function. Neuroimage 2008, 42:147-157.
53. Marreiros A.C., Kiebel S.J., Daunizeau J., Harrison L.M., Friston K.J. Population dynamics under the Laplace assumption. Neuroimage 2009, 44:701-714.
54. McKay D.J.C. A practical Bayesian framework for backpropagation networks. Neural Comput. 1992, 4:448-472.
55. McIntosh A.R. Towards a network theory of cognition. Neural Netw. 2000, 13:861-870.
56. McIntosh A.R., Gonzalez-Lima F. Structural equation modelling and its application to network analysis in functional brain imaging. Hum. Brain Mapp. 1994, 2:2-22.
57. Moran R.J., Kiebel S.J., Stephan K.E., Reilly R.B., Daunizeau J., Friston K.J. A neural mass model of spectral responses in electrophysiology. Neuroimage 2007, 37:706-720.
58. Moran R.J., Stephan K.E., Kiebel S.J., Rombach M., O'Connor W.T., Murphy K.J., Reilly R.B., Friston K.J. Bayesian estimation of synaptic physiology from the spectral responses of neural masses. Neuroimage 2008, 42:272-284.
59. Moran R.J., Stephan K.E., Seidenbecher T., pape H.C., Dolan R.J., Friston K.J. Dynamic causal models of steady-state responses. Neuroimage 2009, 44:796-811.
60. Moris C., Lecar H. Voltage oscillations in the barnacle giant muscle fiber. Biophys. J. 1981, 35:193-213.
61. Mosher J.C., Leahy R.M., Lewis P.S. EEG and MEG: forward solutions for inverse methods. IEEE Trans. Biomed. Eng. 1999, 46:245-259.
62. Passingham R.E., Stephan K.E., Kötter R. The anatomical basis for functional localization in the cortex. Nat. Rev. Neurosci. 2002, 3:606-616.
63. Penny W.D., Stephan K.E., Mechelli A., Friston K.J. Modelling functional interaction: a comparison of structural equation and dynamic causal models. Neuroimage 2004, 23:264-274.
64. Penny W.D., Stephan K.E., Mechelli A., Friston K.J. Comparing dynamic causal models. Neuroimage 2004, 22:1157-1172.
65. Penny W., Litvak V., Fuentemilla L., Duzel E., Friston K.J. Dynamic causal modelling for phase coupling. J. Neurosci. Methods 2009, 183:19-30.
66. Penny, W., Joao, M., Flandin, G., Daunizeau, J., Stephan, K.E., Friston, K.J., Schofield, T., Leff, A.P., in revision. Comparing model families. PLoS Comp Biol.
67. Riera J.J., Wan X., Jimenez J.C., Kawashima R. Nonlinear local electrovascular coupling. I: a theoretical model. Hum. Brain Mapp. 2006, 27:896-914.
68. Riera J.J., Schousboe A., Waagepetersen H.S., Howarth C., Hyder F. The micro-architecture of the cerebral cortex: functional neuroimaging models and metabolism. Neuroimage 2008, 40:1436-1459.
69. Robert, C., L'analyse statistique Bayesienne, Ed. Economica (1992).
70. Roebroeck A., Formisano E., Goebel R. Mapping directed influence over the brain using Granger causality and fMRI. Neuroimage 2005, 25:230-242.
71. Roebroeck A., Formisano E., Goebel R. The identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. Neuroimage. 2011, 58:296-302. (this issue).
72. Roebroeck A., Formisano E., Goebel R. Reply to Friston and David after comments on: The identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. Neuroimage. 2011, 58:310-311.
73. Rudrauf D., David O., Lachaux J.P., Kovach C.K., Martinerie J., Renault B., Damasio A. Rapid interactions between the ventral visual stream and emotion-related structures rely on a two-pathway architecture. J. Neurosci. 2008, 28:2793-2803.
74. Shmuel A., Augath M., Oeltermann A., Logothetis N.K. Negative functional MRI response correlates with decreases in neuronal activity in monkey visual area V1. Nat. Neurosci. 2006, 9(4):569-577.
75. Schuyler B., Ollinger J.M., Oakes T.R., Johnstone T., Davidson R.J. Dynamic causal modeling applied to fMRI data shows high reliability. Neuroimage 2009, 49:603-611.
76. Solomon S.G., White A.G., Martin P.R. Extraclassical receptive field properties of parvocellular, magnocellular and koniocellular cells in the primate lateral geniculate nucleus. J. Neurosci. 2002, 22:338-349.
77. Sotero R.C., Trujillo-Barreto N.J. Biophysical model for integrating neuronal activity, EEG, fMRI and metabolism. Neuroimage 2007, 39:290-309.
78. Soula H., Chow C.C. Stochastic dynamics of a finite size spiking neural network. Neural Comput. 2007, 19:3262-3292.
79. Sporns O. Brain connectivity. Scholarpedia 2007, 2(10):4695.
80. Stephan K.E., Harrison L.M., Penny W.D., Friston K.J. Biophysical models of fMRI responses. Curr. Opin. Neurobiol. 2004, 14:629-635.
81. Stephan K.E., Weiskopf N., Drysdale P.M., Robinson P.A., Friston K.J. Comparing hemodynamic models with DCM. Neuroimage 2007, 38:387-401.
82. Stephan K.E., Kasper L., Harrison L., Daunizeau J., Den Ouden H., Breakspear M., Friston K.J. Nonlinear dynamic causal models for fMRI. Neuroimage 2008, 42:649-662.
83. Stephan K.E., Penny W.D., Daunizeau J., Moran R., Friston K.J. Bayesian model comparison for group studies. Neuroimage 2009, 46:1004-1017.
84. Stephan K.E., Friston K.J., Frith C.D. Dysconnection in schizophrenia: from abnormal synaptic plasticity to failures of self-monitoring. Schizophr. Bull. 2009, 35:509-527.
85. Stephan K.E., Penny W.D., Moran R.J., Den Ouden H.E.M., Daunizeau J., Friston K.J. Ten simple rules for dynamic causal modelling. Neuroimage. 2011, 49:3099-3109.
86. Takano T., Tian G.F., Peng W., Lou N., Libionka W., Han X., Nedergaard M. Astrocyte-mediated control of cerebral blood flow. Nat. Neurosci. 2006, 9:260-267.
87. Valdes-Sosa P., Sanchez-Bornot J.M., Sotero R.C., Iturria-Medina Y., Aleman-Gomez Y., Bosch-Bayard J., Carbonell F., Ozaki T. Model driven EEG/fMRI fusion of brain oscillations. Hum. Brain Mapp. 2009, 30(9):2701-2721.
88. Woolrich M., Jbabdi S., Behrens T.E. fMRI dynamic causal modelling with inferred regions of interest. Proc. of the Organisation for Human Brain Mapping, San Francisco, 2009 2009.
89. Yedidia J.S. An Idiosyncratic Journey Beyond Mean-Field Theory 2000, MIT Press.
90. Zeki S., Shipp S. The functional logic of cortical connections. Nature 1988, 335:440-442.