Brain network constraints and recurrent neural networks reproduce unique trajectories and state transitions seen over the span of minutes in resting-state fMRI

Network Neuroscience
A. Kashyap, Shella Keilholz

Abstract

Large-scale patterns of spontaneous whole-brain activity seen in resting-state functional magnetic resonance imaging (rs-fMRI) are in part believed to arise from neural populations interacting through the structural network (Honey, Kötter, Breakspear, & Sporns, 2007). Generative models that simulate this network activity, called brain network models (BNM), are able to reproduce global averaged properties of empirical rs-fMRI activity such as functional connectivity (FC) but perform poorly in reproducing unique trajectories and state transitions that are observed over the span of minutes in whole-brain data (Cabral, Kringelbach, & Deco, 2017; Kashyap & Keilholz, 2019). The manuscript demonstrates that by using recurrent neural networks, it can fit the BNM in a novel way to the rs-fMRI data and predict large amounts of variance between subsequent measures of rs-fMRI data. Simulated data also contain unique repeating trajectories observed in rs-fMRI, called quasiperiodic patterns (QPP), that span 20 s and complex state transitions observed using k-means analysis on windowed FC matrices (Allen et al., 2012; Majeed et al., 2011). Our approach is able to estimate the manifold of rs-fMRI dynamics by training on generating subsequent t...Continue Reading

References

Jun 6, 2007·Proceedings of the National Academy of Sciences of the United States of America·Christopher J HoneyOlaf Sporns
Jul 4, 2008·PLoS Biology·Patric HagmannOlaf Sporns
Jun 6, 2009·Proceedings of the National Academy of Sciences of the United States of America·Gustavo DecoRolf Kötter
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Feb 27, 2013·Proceedings of the National Academy of Sciences of the United States of America·Xiao Liu, Jeff H Duyn
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May 21, 2013·NeuroImage·David C Van EssenUNKNOWN WU-Minn HCP Consortium
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Jan 23, 2016·Nature Communications·Selen AtasoyJoel Pearson
Nov 3, 2016·Proceedings of the National Academy of Sciences of the United States of America·Daniel S MarguliesJonathan Smallwood
Jul 4, 2017·NeuroImage·Diego VidaurreMark W Woolrich
Aug 22, 2017·NeuroImage·Jacob C W BillingsShella D Keilholz
Jul 26, 2018·Biomarkers in Medicine·Jens P GoetzeJens F Rehfeld
Nov 2, 2018·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Chethan PandarinathJonathan C Kao
Feb 23, 2019·Network Neuroscience·Amrit Kashyap, Shella Keilholz
Aug 21, 2019·Proceedings of the National Academy of Sciences of the United States of America·Gustavo DecoMorten L Kringelbach

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Citations

Jul 26, 2021·NeuroImage·Jung-Hoon KimZhongming Liu

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Software Mentioned

TensorFlow Adam Optimizer
FreeSurfer
HCP
MRtrix
Python
BNM
fMRI
TensorFlow

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