Structural, geometric and genetic factors predict interregional brain connectivity patterns probed by electrocorticography
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Yeo, B. T. et al. The organization of the human cerebral cortex estimated by intrinsic functional connectivity. J. Neurophysiol. 106, 1125–1165 (2011).
Mann, K., Gallen, C. L. & Clandinin, T. R. Whole-brain calcium imaging reveals an intrinsic functional network in Drosophila. Curr. Biol. 27, 2389–2396 (2017).
Avitan, L. et al. Spontaneous activity in the zebrafish tectum reorganizes over development and is influenced by visual experience. Curr. Biol. 27, 2407–2419 (2017).
Bullmore, E. & Sporns, O. Complex brain networks: graph theoretical analysis of structural and functional systems. Nat. Rev. Neurosci. 10, 186–198 (2009).
Stam, C. J. & Reijneveld, J. C. Graph theoretical analysis of complex networks in the brain. Nonlinear Biomed. Phys. 1, 3 (2007).
Shirer, W. R., Ryali, S., Rykhlevskaia, E., Menon, V. & Greicius, M. D. Decoding subject-driven cognitive states with whole-brain connectivity patterns. Cereb. Cortex 22, 158–165 (2012).
Cole, M. W., Bassett, D. S., Power, J. D., Braver, T. S. & Petersen, S. E. Intrinsic and task-evoked network architectures of the human brain. Neuron 83, 238–251 (2014).
Fornito, A., Zalesky, A. & Breakspear, M. The connectomics of brain disorders. Nat. Rev. Neurosci. 16, 159–172 (2015).
Finn, E. S. et al. Functional connectome fingerprinting: identifying individuals using patterns of brain connectivity. Nat. Neurosci. 18, 1664–1671 (2015).
Gordon, E. M. et al. Individual-specific features of brain systems identified with resting state functional correlations. NeuroImage 146, 918–939 (2017).
Voytek, B. et al. Oscillatory dynamics coordinating human frontal networks in support of goal maintenance. Nat. Neurosci. 18, 1318–1324 (2015).
Jacobs, J. et al. Direct electrical stimulation of the human entorhinal region and hippocampus impairs memory. Neuron 92, 983–990 (2016).
Branco, M. P. et al. Decoding hand gestures from primary somatosensory cortex using high-density ECoG. NeuroImage 147, 130–142 (2017).
Ortega, G. J., Sola, R. G. & Pastor, J. Complex network analysis of human ECoG data. Neurosci. Lett. 447, 129–133 (2008).
Kramer, M. A. et al. Coalescence and fragmentation of cortical networks during focal seizures. J. Neurosci. 30, 10076–10085 (2010).
Chu, C. J. et al. Emergence of stable functional networks in long-term human electroencephalography. J. Neurosci. 32, 2703–2713 (2012).
Wilke, C., Worrell, G. & He, B. Graph analysis of epileptogenic networks in human partial epilepsy. Epilepsia 52, 84–93 (2011).
Burns, S. P. et al. Network dynamics of the brain and influence of the epileptic seizure onset zone. Proc. Natl Acad. Sci. USA 111, E5321–E5330 (2014).
Keller, C. J. et al. Corticocortical evoked potentials reveal projectors and integrators in human brain networks. J. Neurosci. 34, 9152–9163 (2014).
Khambhati, A. N., Davis, K. A., Lucas, T. H., Litt, B. & Bassett, D. S. Virtual cortical resection reveals push–pull network control preceding seizure evolution. Neuron 91, 1170–1182 (2016).
Proix, T., Bartolomei, F., Guye, M. & Jirsa, V. K. Individual brain structure and modelling predict seizure propagation. Brain 140, 641–654 (2017).
Dringenberg, H. C. & Vanderwolf, C. H. Involvement of direct and indirect pathways in electrocorticographic activation. Neurosci. Biobehav. Rev. 22, 243–257 (1998).
Goñi, J. Resting-brain functional connectivity predicted by analytic measures of network communication. Proc. Natl Acad. Sci. USA 111, 833–838 (2014).
Richiardi, J. et al. Correlated gene expression supports synchronous activity in brain networks. Science 348, 1241–1244 (2015).
Cammoun, L. et al. Mapping the human connectome at multiple scales with diffusion spectrum MRI. J. Neurosci. Methods 203, 386–397 (2012).
Newman, M. E. J. & Girvan, M. Finding and evaluating community structure in networks. Phys. Rev. E 69, 026113 (2004).
Kopell, N., Ermentrout, G. B., Whittington, M. A. & Traub, R. D. Gamma rhythms and beta rhythms have different synchronization properties. Proc. Natl Acad. Sci. USA 97, 1867–1872 (2000).
Menon, V. et al. Spatio-temporal correlations in human gamma band electrocorticograms. Electroencephalogr. Clin. Neurophysiol. 98, 89–102 (1996).
Bullmore, Ed & Sporns, O. The economy of brain network organization. Nat. Rev. Neurosci. 13, 336–349 (2012).
Ramsay, J. O. & Silverman, B. W. Applied Functional Data Analysis: Methods and Case Studies (Springer, 2002).
Fries, P. A mechanism for cognitive dynamics: neuronal communication through neuronal coherence. Trends Cogn. Sci. 9, 474–480 (2005).
Muller, L. et al. Spatial resolution dependence on spectral frequency in human speech cortex electrocorticography. J. Neural Eng. 13, 056013 (2016).
Swann, N. et al. Intracranial EEG reveals a time- and frequency-specific role for the right inferior frontal gyrus and primary motor cortex in stopping initiated responses. J. Neurosci. 29, 12675–12685 (2009).
Watrous, A. J., Tandon, N., Conner, C. R, Pieters, T. & Ekstrom, A. D. Frequency-specific network connectivity increases underlie accurate spatiotemporal memory retrieval. Nat. Neurosci. 16, 349–356 (2013).
Honey, C. J. et al. Predicting human resting-state functional connectivity from structural connectivity. Proc. Natl Acad. Sci. USA 106, 2035–2040 (2009).
Adachi, Y. et al. Functional connectivity between anatomically unconnected areas is shaped by collective network-level effects in the macaque cortex. Cereb. Cortex 22, 1586–1592 (2011).
Bernard, D. et al. A long nuclear-retained non-coding RNA regulates synaptogenesis by modulating gene expression. EMBO J. 29, 3082–3093 (2010).
Chiang, M.-C. et al. Genetics of brain fiber architecture and intellectual performance. J. Neurosci. 29, 2212–2224 (2009).
Kochunov, P. et al. Genetic analysis of cortical thickness and fractional anisotropy of water diffusion in the brain. Front. Neurosci. 5, 120 (2011).
Salmela, E. et al. Evidence for genetic regulation of the human parieto-occipital 10-Hz rhythmic activity. Eur. J. Neurosci. 44, 1963–1971 (2016).
Rosvall, M., Grönlund, A., Minnhagen, P. & Sneppen, K. Searchability of networks. Phys. Rev. E 72, 046117 (2005).
Arnatkeviciute, A., Fulcher, B. D. & Fornito, A. A practical guide to linking brain-wide gene expression and neuroimaging data. NeuroImage 189, 353–367 (2019).
Krienen, F. M., Yeo, B. T., Ge, T., Buckner, R. L. & Sherwood, C. C. Transcriptional profiles of supragranular-enriched genes associate with corticocortical network architecture in the human brain. Proc. Natl Acad. Sci. USA 113, E469–E478 (2016).
Ezzyat, Y. et al. Direct brain stimulation modulates encoding states and memory performance in humans. Curr. Biol. 27, 1251–1258 (2017).
Eden, E., Lipson, D., Yogev, S. & Yakhini, Z. Discovering motifs in ranked lists of DNA sequences. PLoS Comput. Biol. 3, e39 (2007).
Eden, E., Navon, R., Steinfeld, I., Lipson, D. & Yakhini, Z. GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists. BMC Bioinformatics 10, 48 (2009).
Khambhati, A. N. et al. Recurring functional interactions predict network architecture of interictal and ictal states in neocortical epilepsy. eNeuro 4, 1–18 (2017).
Chapeton, J. I., Inati, S. K. & Zaghloul, K. A. Stable functional networks exhibit consistent timing in the human brain. Brain 140, 628–640 (2017).
Solomon, E. et al. Widespread theta synchrony and high-frequency desynchronization underlies enhanced cognition. Nat. Commun. 8, 1704 (2017).
Power, J. D., Barnes, K. A., Snyder, A. Z., Schlaggar, B. L. & Petersen, S. E. Spurious but systematic correlations in functional connectivity MRI networks arise from subject motion. NeuroImage 59, 2142–2154 (2012).
Clune, J., Mouret, J.-B. & Lipson, H. The evolutionary origins of modularity. Proc. R. Soc. B 280, 20122863 (2013).
Mantini, D., Perrucci, M. G., Del Gratta, C. D., Romani, G. L. & Corbetta, M. Electrophysiological signatures of resting state networks in the human brain. Proc. Natl Acad. Sci. USA 104, 13170–13175 (2007).
Marzetti, L. et al. Frequency specific interactions of MEG resting state activity within and across brain networks as revealed by the multivariate interaction measure. NeuroImage 79, 172–183 (2013).
Battiston, F., Nicosia, V., Chavez, M. & Latora, V. Multilayer motif analysis of brain networks. Chaos 27, 047404 (2017).
Kucyi, A. et al. Intracranial electrophysiology reveals reproducible intrinsic functional connectivity within human brain networks. J. Neurosci. 38, 4230–4242 (2018).
Conner, C. R., Ellmore, T. M., Pieters, T. A., DiSano, M. A. & Tandon, N. Variability of the relationship between electrophysiology and BOLD-fMRI across cortical regions in humans. J. Neurosci. 31, 12855–12865 (2011).
Goense, J. B. M. & Logothetis, N. K. Neurophysiology of the BOLD fMRI signal in awake monkeys. Curr. Biol. 18, 631–640 (2008).
Winawer, J. et al. Asynchronous broadband signals are the principal source of the BOLD response in human visual cortex. Curr. Biol. 23, 1145–1153 (2013).
Miller, K. J., Honey, C. J., Hermes, D., Rao, R. P. N. & Ojemann, J. G. Broadband changes in the cortical surface potential track activation of functionally diverse neuronal populations. NeuroImage 85, 711–720 (2014).
Hinne, M. et al. The missing link: predicting connectomes from noisy and partially observed tract tracing data. PLoS Comput. Biol. 13, e1005374 (2017).
Lo, R. Y., Jagust, W. J. & Alzheimer’s Disease Neuroimaging Initiative. Predicting missing biomarker data in a longitudinal study of Alzheimer disease. Neurology 78, 1376–1382 (2012).
Henle, C. et al. First long term in vivo study on subdurally implanted micro-ECoG electrodes, manufactured with a novel laser technology. Biomed. Micro. 13, 59–68 (2011).
Lu, L., Pan, L., Zhou, T., Zhang, Y. C. & Stanley, H. E. Toward link predictability of complex networks. Proc. Natl Acad. Sci. USA 112, 2325–2330 (2015).
Pan, L., Zhou, T., Lu, L. & Hu, C. K. Predicting missing links and identifying spurious links via likelihood analysis. Sci. Rep. 6, 22955 (2016).
Margulies, D. S. et al. Situating the default-mode network along a principal gradient of macroscale cortical organization. Proc. Natl Acad. Sci. USA 113, 12574–12579 (2016).
Honey, C. J., Kötter, R., Breakspear, M. & Sporns, O. Network structure of cerebral cortex shapes functional connectivity on multiple time scales. Proc. Natl Acad. Sci. USA 104, 10240–10245 (2007).
Hermundstad, A. M. et al. Structural foundations of resting-state and task-based functional connectivity in the human brain. Proc. Natl Acad. Sci. USA 110, 6169–6174 (2013).
Betzel, R. F. et al. Multi-scale community organization of the human structural connectome and its relationship with resting-state functional connectivity. Netw. Sci. 1, 353–373 (2013).
Rubinov, M., Ypma, R. J., Watson, C. & Bullmore, E. T. Wiring cost and topological participation of the mouse brain connectome. Proc. Natl Acad. Sci. USA 112, 10032–10037 (2015).
Gaiteri, C., Ding, Y., French, B., Tseng, G. C. & Sibille, E. Beyond modules and hubs: the potential of gene coexpression networks for investigating molecular mechanisms of complex brain disorders. Genes Brain Behav. 13, 13–24 (2014).
Pezawas, L. et al. 5-HTTLPR polymorphism impacts human cingulate–amygdala interactions: a genetic susceptibility mechanism for depression. Nat. Neurosci. 8, 828–834 (2005).
Meyer-Lindenberg, A. et al. Neural mechanisms of genetic risk for impulsivity and violence in humans. Proc. Natl Acad. Sci. USA 103, 6269–6274 (2006).
Goulas A., et al. Cytoarchitectonic similarity is a wiring principle of the human connectome. Preprint at https://www.biorxiv.org/content/10.1101/068254v1 (2016).
Glasser, M. F. et al. A multi-modal parcellation of human cerebral cortex. Nature 536, 171–178 (2016).
Baaré, W. F. C. et al. Quantitative genetic modeling of variation in human brain morphology. Cereb. Cortex 11, 816–824 (2001).
Whitaker, K. J. et al. Adolescence is associated with genomically patterned consolidation of the hubs of the human brain connectome. Proc. Natl Acad. Sci. USA 113, 9105–9110 (2016).
Hawrylycz, M. J. et al. An anatomically comprehensive atlas of the adult human brain transcriptome. Nature 489, 391–399 (2012).
Chu, C. J. et al. EEG functional connectivity is partially predicted by underlying white matter connectivity. NeuroImage 108, 23–33 (2015).
Birn, R. M., Diamond, J. B., Smith, M. A. & Bandettini, P. A. Separating respiratory-variation-related fluctuations from neuronal-activity-related fluctuations in fMRI. NeuroImage 31, 1536–1548 (2006).
Deco, G., Jirsa, V. K. & McIntosh, A. R. Emerging concepts for the dynamical organization of resting-state activity in the brain. Nat. Rev. Neurosci. 12, 43–56 (2011).
Jones, A. R., Overly, C. C. & Sunkin, S. M. The Allen Brain Atlas: 5 years and beyond. Nat. Rev. Neurosci. 10, 821–828 (2009).
Sunkin, S. M. et al. Allen Brain Atlas: an integrated spatio-temporal portal for exploring the central nervous system. Nucleic acids Res. 41, D996–D1008 (2013).
Thomas, C. et al. Anatomical accuracy of brain connections derived from diffusion MRI tractography is inherently limited. Proc. Natl Acad. Sci. USA 111, 16574–16579 (2014).
Reveley, C. et al. Superficial white matter fiber systems impede detection of long-range cortical connections in diffusion MR tractography. Proc. Natl Acad. Sci. USA 112, E2820–E2828 (2015).
Bassett, D. S. et al. Dynamic reconfiguration of human brain networks during learning. Proc. Natl Acad. Sci. USA 108, 7641–7646 (2011).
Zhou, D., Thompson, W. K. & Siegle, G. MATLAB toolbox for functional connectivity. NeuroImage 47, 1590–1607 (2009).
Kitzbichler, M. G., Smith, M. L., Christensen, S. R. & Bullmore, E. Broadband criticality of human brain network synchronization. PLoS Comput. Biol. 5, e1000314 (2009).
Betzel, R. F. et al. Synchronization dynamics and evidence for a repertoire of network states in resting EEG. Front. Comput. Neurosci. 6, 74 (2012).
Park, H.-J. & Friston, K. Structural and functional brain networks: from connections to cognition. Science 342, 1238411 (2013).
He, B. J., Snyder, A. Z., Zempel, J. M., Smyth, M. D. & Raichle, M. E. Electrophysiological correlates of the brain’s intrinsic large-scale functional architecture. Proc. Natl Acad. Sci. USA 105, 16039–16044 (2008).
Kramer, M. A., Eden, U. T., Cash, S. S. & Kolaczyk, E. D. Network inference with confidence from multivariate time series. Phys. Rev. E 79, 061916 (2009).
Owen, L. L. W. & Manning, J. R. Towards human super EEG. Preprint at https://www.biorxiv.org/content/10.1101/121020v1 (2017).
Rosset, A., Spadola, L. & Ratib, O. OsiriX: an open-source software for navigating in multidimensional DICOM images. J. Digit. Imaging 17, 205–216 (2004).
Betzel, R. F., Gu, S., Medaglia, J. D., Pasqualetti, F. & Bassett, D. S. Optimally controlling the human connectome: the role of network topology. Sci. Rep. 6, 30770 (2016).
Betzel, R. F. et al. The modular organization of human anatomical brain networks: accounting for the cost of wiring. Netw. Neurosci. 1, 42–68 (2017).
Betzel, R. F., Medaglia, J. D. & Bassett, D. S. Diversity of meso-scale architecture in human and non-human connectomes. Nat. Commun. 9, 346 (2018).
Mišić, B. et al. Cooperative and competitive spreading dynamics on the human connectome. Neuron 86, 1518–1529 (2015).
Roberts, J. A., Perry, A., Roberts, G., Mitchell, P. B. & Breakspear, M. Consistency-based thresholding of the human connectome. NeuroImage 145, 118–129 (2017).
Jones, D. K., Knösche, T. R. & Turner, R. White matter integrity, fiber count, and other fallacies: the do’s and don’ts of diffusion MRI. NeuroImage 73, 239–254 (2013).
Jenkinson, M., Beckmann, C. F., Behrens, T. E. J., Woolrich, M. W. & Smith, S. M. FSL. NeuroImage 62, 782–790 (2012).
Greve, D. N. & Fischl, B. Accurate and robust brain image alignment using boundary-based registration. NeuroImage 48, 63–72 (2009).
Zhang, Y., Brady, M. & Smith, S. Segmentation of brain MR images through a hidden Markov random field model and the expectation–maximization algorithm. IEEE Trans. Med. Imaging 20, 45–57 (2001).
Jenkinson, M., Bannister, P., Brady, M. & Smith, S. Improved optimization for the robust and accurate linear registration and motion correction of brain images. NeuroImage 17, 825–841 (2002).
Murphy, K., Birn, R. M., Handwerker, D. A., Jones, T. B. & Bandettini, P. A. The impact of global signal regression on resting state correlations: are anti-correlated networks introduced? NeuroImage 44, 893–905 (2009).
Power, J. D., Plitt, M., Laumann, T. O. & Martin, A. Sources and implications of whole-brain fMRI signals in humans. NeuroImage 146, 609–625 (2017).
Simpson, S. L., Moussa, M. N. & Laurienti, P. J. An exponential random graph modeling approach to creating group-based representative whole-brain connectivity networks. NeuroImage 60, 1117–1126 (2012).
Bazzi, M. et al. Community detection in temporal multilayer networks, with an application to correlation networks. Multiscale Model. Simul. 14, 1–41 (2016).
Iturria-Medina, Y., Sotero, R. C., Canales-Rodrí, E. J., Alemán-Gómez, Y. & Melie-García, L. Studying the human brain anatomical network via diffusion-weighted MRI and graph theory. NeuroImage 40, 1064–1076 (2008).