Dynamic causal modeling: Difference between revisions

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The neural model in DCM for fMRI is a [[Taylor series|Taylor approximation]] that captures the gross causal influences between brain regions and their change due to experimental inputs (see picture). This is coupled with a detailed biophysical model of the generation of the BOLD response and the MRI signal,<ref name="Friston 2003"/> based on the Balloon model of Buxton et al.,<ref>{{Cite journal|last=Buxton|first=Richard B.|last2=Wong|first2=Eric C.|last3=Frank|first3=Lawrence R.|date=June 1998|title=Dynamics of blood flow and oxygenation changes during brain activation: The balloon model|journal=Magnetic Resonance in Medicine|volume=39|issue=6|pages=855–864|doi=10.1002/mrm.1910390602|issn=0740-3194|pmid=9621908}}</ref> which was supplemented with a model of neurovascular coupling.<ref>{{Cite journal|last=Friston|first=K.J.|last2=Mechelli|first2=A.|last3=Turner|first3=R.|last4=Price|first4=C.J.|date=October 2000|title=Nonlinear Responses in fMRI: The Balloon Model, Volterra Kernels, and Other Hemodynamics|journal=NeuroImage|volume=12|issue=4|pages=466–477|doi=10.1006/nimg.2000.0630|pmid=10988040|issn=1053-8119}}</ref><ref>{{Cite journal|last=Stephan|first=Klaas Enno|last2=Weiskopf|first2=Nikolaus|last3=Drysdale|first3=Peter M.|last4=Robinson|first4=Peter A.|last5=Friston|first5=Karl J.|date=November 2007|title=Comparing hemodynamic models with DCM|journal=NeuroImage|volume=38|issue=3|pages=387–401|doi=10.1016/j.neuroimage.2007.07.040|pmid=17884583|pmc=2636182|issn=1053-8119}}</ref> Additions to the neural model have included interactions between excitatory and inhibitory neural populations <ref>{{Cite journal|last=Marreiros|first=A.C.|last2=Kiebel|first2=S.J.|last3=Friston|first3=K.J.|date=January 2008|title=Dynamic causal modelling for fMRI: A two-state model|journal=NeuroImage|volume=39|issue=1|pages=269–278|doi=10.1016/j.neuroimage.2007.08.019|pmid=17936017|issn=1053-8119|citeseerx=10.1.1.160.1281}}</ref> and non-linear influences of neural populations on the coupling between other populations.<ref name="Stephan 2008">{{Cite journal|last=Stephan|first=Klaas Enno|last2=Kasper|first2=Lars|last3=Harrison|first3=Lee M.|last4=Daunizeau|first4=Jean|last5=den Ouden|first5=Hanneke E.M.|last6=Breakspear|first6=Michael|last7=Friston|first7=Karl J.|date=August 2008|title=Nonlinear dynamic causal models for fMRI|journal=NeuroImage|volume=42|issue=2|pages=649–662|doi=10.1016/j.neuroimage.2008.04.262|issn=1053-8119|pmc=2636907|pmid=18565765}}</ref>

DCM for resting state studies was first introduced in Stochastic DCM,<ref>{{Cite journal|date=2011-09-15|title=Generalised filtering and stochastic DCM for fMRI|url= https://www.zora.uzh.ch/id/eprint/49235/1/Li_Neuroimage_2011.pdf|journal=NeuroImage|volume=58|issue=2|pages=442–457|doi=10.1016/j.neuroimage.2011.01.085|pmid=21310247|issn=1053-8119|last1=Li|first1=Baojuan|last2=Daunizeau|first2=Jean|last3=Stephan|first3=Klaas E|last4=Penny|first4=Will|last5=Hu|first5=Dewen|last6=Friston|first6=Karl}}</ref> which estimates both neural fluctuations and connectivity parameters in the time ___domain, using [[Generalized filtering|Generalized Filtering]]. A more efficient scheme for resting state data was subsequently introduced which operates in the frequency ___domain, called DCM for Cross-Spectral Density (CSD).<ref>{{Cite journal|last=Friston|first=Karl J.|last2=Kahan|first2=Joshua|last3=Biswal|first3=Bharat|last4=Razi|first4=Adeel|date=July 2014|title=A DCM for resting state fMRI|journal=NeuroImage|volume=94|pages=396–407|doi=10.1016/j.neuroimage.2013.12.009|pmid=24345387|pmc=4073651|issn=1053-8119}}</ref><ref>{{Cite journal|last=Razi|first=Adeel|last2=Kahan|first2=Joshua|last3=Rees|first3=Geraint|last4=Friston|first4=Karl J.|date=February 2015|title=Construct validation of a DCM for resting state fMRI|journal=NeuroImage|volume=106|pages=1–14|doi=10.1016/j.neuroimage.2014.11.027|issn=1053-8119|pmc=4295921|pmid=25463471}}</ref> Both of these can be applied to large-scale brain networks by constraining the connectivity parameters based on the functional connectivity.<ref>{{Cite journal|last=Seghier|first=Mohamed L.|last2=Friston|first2=Karl J.|date=March 2013|title=Network discovery with large DCMs|journal=NeuroImage|volume=68|pages=181–191|doi=10.1016/j.neuroimage.2012.12.005|issn=1053-8119|pmc=3566585|pmid=23246991}}</ref><ref name="Razi 2017">{{Cite journal|last=Razi|first=Adeel|last2=Seghier|first2=Mohamed L.|last3=Zhou|first3=Yuan|last4=McColgan|first4=Peter|last5=Zeidman|first5=Peter|last6=Park|first6=Hae-Jeong|last7=Sporns|first7=Olaf|last8=Rees|first8=Geraint|last9=Friston|first9=Karl J.|date=October 2017|title=Large-scale DCMs for resting-state fMRI|journal=Network Neuroscience|volume=1|issue=3|pages=222–241|doi=10.1162/netn_a_00015|issn=2472-1751|pmc=5796644|pmid=29400357}}</ref> Another recent development for resting state analysis is Regression DCM<ref>{{Cite journal|last=Frässle|first=Stefan|last2=Lomakina|first2=Ekaterina I.|last3=Razi|first3=Adeel|last4=Friston|first4=Karl J.|last5=Buhmann|first5=Joachim M.|last6=Stephan|first6=Klaas E.|date=July 2017|title=Regression DCM for fMRI|journal=NeuroImage|volume=155|pages=406–421|doi=10.1016/j.neuroimage.2017.02.090|pmid=28259780|issn=1053-8119|doi-access=free}}</ref> implemented in the Tapas software collection (see [[#Software implementations|Software implementations]]). Regression DCM operates in the frequency ___domain, but linearizes the model under certain simplifications, such as having a fixed (canonical) haemodynamic response function. The enables rapid estimation of large-scale brain networks.

[[File:DCM for ERP and CMC.svg|thumb|Models of the cortical column used in EEG/MEG/LFP analysis. Self-connections on each population are present but not shown for clarity. Left: DCM for ERP. Right: Canonical Microcircuit (CMC). 1=spiny stellate cells (layer IV), 2=inhibitory interneurons, 3=(deep) pyramidal cells and 4=superficial pyramidal cells.]]

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* [http://www.scholarpedia.org/article/Dynamic_causal_modeling Dynamic Causal Modelling on Scholarpedia]

* Ten simple rules for dynamic causal modeling<ref name="Stephan 2010" />

* Understanding DCM: ten simple rules for the clinician<ref>{{Cite journal|last=Kahan|first=Joshua|last2=Foltynie|first2=Tom|date=December 2013|title=Understanding DCM: Ten simple rules for the clinician|journal=NeuroImage|volume=83|pages=542–549|doi=10.1016/j.neuroimage.2013.07.008|pmid=23850463|issn=1053-8119|doi-access=free}}</ref>

* Neural masses and fields in dynamic causal modeling<ref>{{Cite journal|last=Moran|first=Rosalyn|last2=Pinotsis|first2=Dimitris A.|last3=Friston|first3=Karl|date=2013|title=Neural masses and fields in dynamic causal modeling|journal=Frontiers in Computational Neuroscience|volume=7|pages=57|doi=10.3389/fncom.2013.00057|pmid=23755005|pmc=3664834|issn=1662-5188}}</ref>