Cerebral cartography and connectomics

Philosophical Transactions of the Royal Society B: Biological Sciences

Volumn 370, Issue 1668, 2015, Pages

  Sporns, Olaf ^a  

^a INDIANA UNIVERSITY   (United States)

Author keywords

Brain connectivity; Brain mapping; Connectome; FMRI

Indexed keywords

BRAIN; CARTOGRAPHY; CELL ORGANELLE; DATA SET; NEUROLOGY; NUMERICAL MODEL; TEMPORAL ANALYSIS;

ANATOMY AND HISTOLOGY; BRAIN CORTEX; BRAIN MAPPING; COMPUTER SIMULATION; HUMAN; NERVE CELL NETWORK; PHYSIOLOGY; PROCEDURES; SIGNAL TRANSDUCTION;

BRAIN MAPPING; CEREBRAL CORTEX; COMPUTER SIMULATION; HUMANS; NERVE NET; SIGNAL TRANSDUCTION;

EID: 84926166135     PISSN: 09628436     EISSN: 14712970     Source Type: Journal    
DOI: 10.1098/rstb.2014.0173     Document Type: Review

References (151)

1. Zeki S. 2005 Introduction: cerebral cartography 1905-2005. Phil. Trans. R. Soc. B 360, 651-652. (doi:10.1098/rstb.2005.1632)
2. Lima M. 2011 Visual complexity: mapping patterns of information. New York, NY: Princeton Architectural Press
3. Börner K. 2010 Atlas of science. Cambridge, MA: MIT Press
4. Newman M. 2010 Networks: an introduction. Oxford, UK: Oxford University Press
5. Rual JF et al. 2005 Towards a proteome-scale map of the human protein-protein interaction network. Nature 437, 1173-1178. (doi:10.1038/nature04209)
6. Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabási AL. 2007 The human disease network. Proc. Natl Acad. Sci. USA 104, 8685-8690. (doi:10. 1073/pnas.0701361104)
7. Vespignani A. 2012 Modelling dynamical processes in complex socio-technical systems. Nat. Phys. 8, 32-39. (doi:10.1038/nphys2160)
8. Montoya JM, Pimm SL, Sole´ RV. 2006 Ecological networks and their fragility. Nature 442, 259-264. (doi:10.1038/nature04927)
9. Börner K, Sanyal S, Vespignani A. 2007 Network science. Annu. Rev. Inf. Sci. Technol. 41, 537-607. (doi:10.1002/aris.2007.1440410119)
10. Brandes U, Robins G, McCranie A, Wasserman S. 2013 What is network science? Netw. Sci. 1, 1-15. (doi:10.1017/nws.2013.2)
11. Zeki S, Shipp S. 1988 The functional logic of cortical connections. Nature 335, 311-317. (doi:10.1038/335311a0)
12. Felleman DJ, van Essen DC. 1991 Distributed hierarchical processing in the primate cerebral cortex. Cereb. Cortex 1, 1-47. (doi:10.1093/cercor/1.1.1)
13. Scannell JW, Burns GAPC, Hilgetag CC, O’Neil MA, Young MP. 1999 The connectional organization of the cortico-thalamic system of the cat. Cereb. Cortex 9, 277-299. (doi:10.1093/cercor/9.3.277)
14. Sporns O, Tononi G, Kötter R. 2005 The human connectome: a structural description of the human brain. PLoS Comput. Biol. 1, 245-251. (doi:10. 1371/journal.pcbi.0010042)
15. Sporns O. 2013 The human connectome: origins and challenges. Neuroimage 80, 53-61. (doi:10.1016/j. neuroimage.2013.03.023)
16. Behrens TEJ, Sporns O. 2012 Human connectomics. Curr. Opin. Neurobiol. 22, 144-153. (doi:10.1016/j. conb.2011.08.005)
17. Sporns O. 2014 Contributions and challenges for network models in cognitive neuroscience. Nat. Neurosci. 17, 652-660. (doi:10.1038/nn.3690)
18. Van Gehuchten A. 1894 Le Systéme Nerveux de L’Homme. Louvain, Belgium: Uystpuyst-Dieudonne´
19. Obersteiner H. 1890 The anatomy of the central nervous organs in health and disease. Philadelphia, PA: Blakiston
20. Hagmann P, Cammoun L, Gigandet X, Meuli R, Honey CJ, Wedeen V, Sporns O. 2008 Mapping the structural core of human cerebral cortex. PLoS Biol. 6, e159. (doi:10.1371/journal.pbio.0060159)
21. Sporns O. 2011 Networks of the brain. Cambridge, MA: MIT Press
22. Bullmore E, Sporns O. 2009 Complex brain networks: graph theoretical analysis of structural and functional systems. Nat. Rev. Neurosci. 10, 186-198. (doi:10.1038/nrn2575)
23. Friston KJ. 1994 Functional and effective connectivity in neuroimaging: a synthesis. Hum. Brain Mapp. 2, 56-78. (doi:10.1002/hbm. 460020107)
24. Friston KJ. 2011 Functional and effective connectivity: a review. Brain Connect. 1, 13-36. (doi:10.1089/brain.2011.0008)
25. Fox MD, Raichle ME. 2007 Spontaneous fluctuations in brain activity observed with functional magnetic resonance imaging. Nat. Rev. Neurosci. 8, 700-711. (doi:10.1038/nrn2201)
26. Raichle ME. 2011 The restless brain. Brain Connect. 1, 3-12. (doi:10.1089/brain.2011.0019)
27. Van Den Heuvel MP, Hulshoff Pol HE. 2010 Exploring the brain network: a review on restingstate fMRI functional connectivity. Eur. Neuropsychopharmacol. 20, 519-534. (doi:10.1016/j.euroneuro.2010.03.008)
28. Biswal BB et al. 2010 Toward discovery science of human brain function. Proc. Natl Acad. Sci. USA 107, 4734-4739. (doi:10.1073/pnas. 0911855107)
29. Buckner RL, Krienen FM, Yeo BT. 2013 Opportunities and limitations of intrinsic functional connectivity MRI. Nat. Neurosci. 16, 832-837. (doi:10.1038/nn.3423)
30. Rubinov M, Sporns O. 2010 Complex network measures of brain connectivity: uses and interpretations. Neuroimage 52, 1059-1069. (doi:10.1016/j.neuroimage.2009.10.003)
31. Lohmann G, Stelzer J, Neumann J, Ay N, Turner R. 2013 ‘More is different’ in functional magnetic resonance imaging: a review of recent data analysis techniques. Brain Connect. 3, 223-239. (doi:10. 1089/brain.2012.0133)
32. Craddock RC et al. 2013 Imaging human connectomes at the macroscale. Nat. Methods 10, 524-539. (doi:10.1038/nmeth.2482)
33. Jbabdi S, Johansen-Berg H. 2011 Tractography: where do we go from here? Brain Connect. 1, 169-183. (doi:10.1089/brain.2011.0033)
34. Jones DK, Knösche TR, Turner R. 2013 White matter integrity, fiber count, and other fallacies: the do’s and don’ts of diffusion MRI. Neuroimage 73, 239-254. (doi:10.1016/j.neuroimage.2012.06.081)
35. Zalesky A, Fornito A, Bullmore E. 2012 On the use of correlation as a measure of network connectivity. Neuroimage 60, 2096-2106. (doi:10.1016/j. neuroimage.2012.02.001)
36. Valdes-Sosa PA, Roebroeck A, Daunizeau J, Friston K. 2011 Effective connectivity: influence, causality and biophysical modeling. Neuroimage 58, 339-361. (doi:10.1016/j.neuroimage.2011.03.058)
37. Friston KJ, Li B, Daunizeau J, Stephan KE. 2011 Network discovery with DCM. Neuroimage 56, 1202-1221. (doi:10.1016/j.neuroimage.2010. 12.039)
38. Bassett DS, Brown JA, Deshpande V, Carlson JM, Grafton ST. 2011 Conserved and variable architecture of human white matter connectivity. Neuroimage 54, 1262-1279. (doi:10.1016/j.neuroimage.2010. 09.006)
39. Bastiani M, Shah NJ, Goebel R, Roebroeck A. 2012 Human cortical connectome reconstruction from diffusion weighted MRI: the effect of tractography algorithm. Neuroimage 62, 1732-1749. (doi:10. 1016/j.neuroimage.2012.06.002)
40. Besson P, Lopes R, Leclerc X, Derambure P, Tyvaert L. 2014 Intra-subject reliability of the high-resolution whole-brain structural connectome. NeuroImage 102, 283-293. (doi:10.1016/j.neuroimage.2014.07.064)
41. Van Dijk KR, Hedden T, Venkataraman A, Evans KC, Lazar SW, Buckner RL. 2010 Intrinsic functional connectivity as a tool for human connectomics: theory, properties, and optimization. J. Neurophysiol. 103, 297-321. (doi:10.1152/jn. 00783.2009)
42. Zuo XN, Xing XX. 2014 Test-retest reliabilities of resting-state FMRI measurements in human brain functional connectomics: a systems neuroscience perspective. Neurosci. Biobehav. Rev. 45, 100-118. (doi:10.1016/j.neubiorev.2014.05.009)
43. Cao H et al. 2014 Test-retest reliability of fMRIbased graph theoretical properties during working memory, emotion processing, and resting state. Neuroimage 84, 888-900. (doi:10.1016/j.neuro image.2013.09.013)
44. Smith SM, Miller KL, Salimi-Khorshidi G, Webster M, Beckmann CF, Nichols TE, Ramsey JD, Woolrich MW. 2011 Network modelling methods for FMRI. Neuroimage 54, 875-891. (doi:10.1016/j.neuro image.2010.08.063)
45. Cole MW, Bassett DS, Power JD, Braver TS, Petersen SE, Cole MW. 2014 Intrinsic and task-evoked network architectures of the human brain. Neuron 83, 238-251. (doi:10.1016/j.neuron.2014.05.014)
46. Hutchison RM et al. 2013 Dynamic functional connectivity: promise, issues, and interpretations. Neuroimage 80, 360-378. (doi:10.1016/j.neuro image.2013.05.079)
47. Calhoun VD, Miller R, Pearlson G, Adali T. 2014 The chronnectome: time-varying connectivity networks as the next frontier in fMRI data discovery. Neuron 84, 262-274. (doi:10.1016/j.neuron.2014.10.015)
48. Allen EA, Damaraju E, Plis SM, Erhardt EB, Eichele T, Calhoun VD. 2014 Tracking whole-brain connectivity dynamics in the resting state. Cereb. Cortex 24, 663-676. (doi:10.1093/cercor/bhs352)
49. Zalesky A, Fornito A, Cocchi L, Gollo LL, Breakspear M. 2014 Time-resolved resting-state brain networks. Proc. Natl Acad. Sci. USA 111, 10 341-10 346. (doi:10.1073/pnas.1400181111)
50. Gonzalez-Castillo J, Daniel HA, Robinson ME, Hoy CW, Buchanan LC, Saad ZS, Bandettini PA. 2014 The spatial structure of resting state connectivity stability on the scale of minutes. Front. Neurosci. 8, 138. (doi:10.3389/fnins.2014.00138)
51. Palva S, Palva JM. 2012 Discovering oscillatory interaction networks with M/EEG: challenges and breakthroughs. Trends Cogn. Sci. 16, 219-230. (doi:10.1016/j.tics.2012.02.004)
52. Chu CJ, Kramer MA, Pathmanathan J, Bianchi MT, Westover MB, Wizon L, Cash SS. 2012 Emergence of stable functional networks in long-term human electroencephalography. J. Neurosci. 32, 2703-2713. (doi:10.1523/JNEUROSCI.5669-11.2012)
53. Kitzbichler MG, Henson RN, Smith ML, Nathan PJ, Bullmore ET. 2011 Cognitive effort drives workspace configuration of human brain functional networks. J. Neurosci. 31, 8259-8270. (doi:10.1523/JNEURO SCI.0440-11.2011)
54. Bassett DS, Bullmore ET, Meyer-Lindenberg A, Apud JA, Weinberger DR, Coppola R. 2009 Cognitive fitness of cost-efficient brain functional networks. Proc. Natl Acad. Sci. USA 106, 11 747-11 752. (doi:10.1073/pnas.0903641106)
55. Deco G, Jirsa VK, McIntosh AR. 2013 Resting brains never rest: computational insights into potential cognitive architectures. Trends Neurosci. 36, 268-274. (doi:10.1016/j.tins.2013.03.001)
56. Bartels A, Zeki S. 2005 The chronoarchitecture of the cerebral cortex. Phil. Trans. R. Soc. B 360, 733-750. (doi:10.1098/rstb.2005.1627)
57. Hawrylycz MJ et al. 2012 An anatomically comprehensive atlas of the adult human brain transcriptome. Nature 489, 391-399. (doi:10.1038/nature11405)
58. Vaishnavi SN, Vlassenko AG, Rundle MM, Snyder AZ, Mintun MA, Raichle ME. 2010 Regional aerobic glycolysis in the human brain. Proc. Natl Acad. Sci. USA 107, 17 757-17762. (doi:10.1073/pnas. 1010459107)
59. Laird AR, Lancaster JJ, Fox PT. 2005 Brainmap. Neuroinformatics 3, 65-77. (doi:10.1385/NI:3:1:065)
60. Yarkoni T, Poldrack RA, Nichols TE, Van Essen DC, Wager TD. 2011 Large-scale automated synthesis of human functional neuroimaging data. Nat. Methods 8, 665-670. (doi:10.1038/nmeth.1635)
61. Gordon EM, Laumann TO, Adeyemo B, Huckins JF, Kelley WM, Petersen SE. In press. Generation and evaluation of a cortical area parcellation from resting-state correlations. Cereb. Cortex. (doi:10. 1093/cercor/bhu239)
62. Yeo BTT et al. 2011 The organization of the human cerebral cortex estimated by functional connectivity. J. Neurophysiol. 106, 1125-1165. (doi:10.1152/jn. 00338.2011)
63. Rushworth MFS, Behrens TEJ, Johansen-Berg H. 2006 Connection patterns distinguish 3 regions of human parietal cortex. Cereb. Cortex 16, 1418-1430. (doi:10.1093/cercor/bhj079)
64. Glasser MF, Van Essen DC. 2011 Mapping human cortical areas in vivo based on myelin content as revealed by T1-and T2-weighted MRI. J. Neurosci. 31, 11 597-11616. (doi:10.1523/JNEUROSCI.2180-11.2011)
65. Cohen AL, Fair DA, Dosenbach NUF, Miezin FM, Dierker D, Van Essen DC, Schlaggar BL, Petersen SE. 2008 Defining functional areas in individual human brains using resting functional connectivity MRI. Neuroimage 41, 45-57. (doi:10.1016/j.neuroimage. 2008.01.066)
66. Wig GS et al. 2013 Parcellating an individual subject’s cortical and subcortical brain structures using snowball sampling of resting-state correlations. Cereb. Cortex 24, 2036-2054. (doi:10. 1093/cercor/bht056)
67. Nelson SM et al. 2010 A parcellation scheme for human left lateral parietal cortex. Neuron 67, 156-170. (doi:10.1016/j.neuron.2010.05.025)
68. Passingham RE, Stephan KE, Kötter R. 2002 The anatomical basis of functional localization in the cortex. Nat. Rev. Neurosci. 3, 606-616. (doi:10. 1038/nrn893)
69. Stephan KE, Kamper L, Bozkurt A, Burns GA, Young MP, Kötter R. 2001 Advanced database methodology for the collation of connectivity data on the macaque brain (CoCoMac). Phil. Trans. R. Soc. Lond. B 356, 1159-1186. (doi:10. 1098/rstb.2001.0908)
70. Hilgetag CC, Kaiser M. 2004 Clustered organization of cortical connectivity. Neuroinformatics 2, 353-360. (doi:10.1385/NI:2:3:353)
71. Markov NT et al. 2013 The role of long-range connections on the specificity of the macaque interareal cortical network. Proc. Natl Acad. Sci. USA 110, 5187-5192. (doi:10.1073/pnas.1218972110)
72. Anwander A, Tittgemeyer M, von Cramon DY, Friederici AD, Knösche TR. 2007 Connectivity-based parcellation of Broca’s area. Cereb. Cortex 17, 816-825. (doi:10.1093/cercor/bhk034)
73. Beckmann M, Johansen-Berg H, Rushworth MF. 2009 Connectivity-based parcellation of human cingulate cortex and its relation to functional specialization. J. Neurosci. 29, 1175-1190. (doi:10. 1523/JNEUROSCI.3328-08.2009)
74. Mars RB et al. 2011 Diffusion-weighted imaging tractography-based parcellation of the human parietal cortex and comparison with human and macaque resting-state functional connectivity. J. Neurosci. 31, 4087-4100. (doi:10.1523/JNEUROSCI.5102-10.2011)
75. Ruschel M, Knösche TR, Friederici AD, Turner R, Geyer S, Anwander A. 2013 Connectivity architecture and subdivision of the human inferior parietal cortex revealed by diffusion MRI. Cereb. Cortex 24, 2436-2448. (doi:10.1093/cercor/bht098)
76. Liu H, Qin W, Li W, Fan L, Wang J, Jiang T, Yu C. 2013 Connectivity-based parcellation of the human frontal pole with diffusion tensor imaging. J. Neurosci. 33, 6782-6790. (doi:10.1523/JNEUROSCI.4882-12.2013)
77. Johansen-Berg H, Behrens TEJ, Robson MD, Drobnjak I, Rushworth MFS, Brady JM, Smith SM, Higham DJ, Matthews PM. 2004 Changes in connectivity profiles define functionally distinct regions in human medial frontal cortex. Proc. Natl Acad. Sci. USA 101, 13335-13340. (doi:10.1073/pnas.0403743101)
78. Jeon HA, Anwander A, Friederici AD. 2014 Functional network mirrored in the prefrontal cortex, caudate nucleus, and thalamus: highresolution functional imaging and structural connectivity. J. Neurosci. 34, 9202-9212. (doi:10. 1523/JNEUROSCI.0228-14.2014)
79. Newman MEJ, Girvan M. 2004 Finding and evaluating community structure in networks. Phys. Rev. E 69, 026113. (doi:10.1103/PhysRevE. 69.026113)
80. Fortunato S. 2010 Community detection in graphs. Phys. Rep. 486, 75-174. (doi:10.1016/j.physrep. 2009.11.002)
81. Fodor JA. 1983 The modularity of mind: an essay on faculty psychology. Cambridge, MA: MIT Press
82. Power JD et al. 2011 Functional network organization of the human brain. Neuron 72, 665-678. (doi:10.1016/j.neuron.2011.09.006)
83. Doucet G et al. 2011 Brain activity at rest: a multiscale hierarchical functional organization. J. Neurophysiol. 105, 2753-2763. (doi:10.1152/jn. 00895.2010)
84. Smith SM et al. 2009 Correspondence of the brain’s functional architecture during activation and rest. Proc. Natl Acad. Sci. USA 106, 13 040-13 045. (doi:10.1073/pnas.0905267106)
85. Crossley NA, Mechelli A, Vertes PE, Winton-Brown TT, Patel AX, Ginestet CE, McGuire P, Bullmore ET. 2013 Cognitive relevance of the community structure of the human brain functional coactivation network. Proc. Natl Acad. Sci. USA 110, 11 583-11 588. (doi:10.1073/pnas.1220826110)
86. Yeo BT, Krienen FM, Chee MW, Buckner RL. 2014 Estimates of segregation and overlap of functional connectivity networks in the human cerebral cortex. Neuroimage 88, 212-227. (doi:10.1016/j. neuroimage.2013.10.046)
87. Wig GS, Laumann TO, Petersen SE. 2014 An approach for parcellating human cortical areas using resting-state correlations. Neuroimage 93, 276-291. (doi:10.1016/j.neuroimage.2013.07.035)
88. Buckner RL, Yeo BT. 2014 Borders, map clusters, and supra-areal organization in visual cortex. Neuroimage 93, 292-297. (doi:10.1016/j. neuroimage.2013.12.036)
89. Andrews-Hanna JR, Reidler JS, Sepulcre J, Poulin R, Buckner RL. 2010 Functional-anatomic fractionation of the brain’s default network. Neuron 65, 550-562. (doi:10.1016/j.neuron.2010.02.005)
90. Fornito A, Harrison BJ, Zalesky A, Simons JS. 2012 Competitive and cooperative dynamics of large-scale brain functional networks supporting recollection. Proc. Natl Acad. Sci. USA 109, 12 788-12 793. (doi:10.1073/pnas.1204185109)
91. Kragel JE, Polyn SM. 2013 Functional interactions between large-scale networks during memory search. Cereb. Cortex 25, 667-679. (doi:10.1093/cercor/bht258)
92. Dosenbach NU et al. 2007 Distinct brain networks for adaptive and stable task control in humans. Proc. Natl Acad. Sci. USA 104, 11 073-11 078. (doi:10.1073/pnas.0704320104)
93. Elton A, Gao W. 2014 Divergent task-dependent functional connectivity of executive control and salience networks. Cortex 51, 56-66. (doi:10.1016/j.cortex.2013.10.012)
94. Bassett DS, Greenfield DL, Meyer-Lindenberg A, Weinberger DR, Moore SW, Bullmore ET. 2010 Efficient physical embedding of topologically complex information processing networks in brains and computer circuits. PLoS Comput. Biol. 6, e1000748. (doi:10.1371/journal.pcbi.1000748)
95. Meunier D, Lambiotte R, Fornito A, Ersche KD, Bullmore ET. 2009 Hierarchical modularity in human brain functional networks. Front. Neuroinf. 3, 37. (doi:10.3389/neuro.11.037.2009)
96. Zeki S. 1993 A vision of the brain. Oxford, UK: Oxford University Press
97. Tononi G, Sporns O, Edelman GM. 1994 A measure for brain complexity: relating functional segregation and integration in the nervous system. Proc. Natl Acad. Sci. USA 91, 5033-5037. (doi:10.1073/pnas. 91.11.5033)
98. Tononi G, Edelman GM, Sporns O. 1998 Complexity and coherency: integrating information in the brain. Trends Cogn. Sci. 2, 474-484. (doi:10.1016/S1364-6613(98)01259-5)
99. Sporns O. 2013 Network attributes for segregation and integration in the human brain. Curr. Opin. Neurobiol. 23, 162-171. (doi:10.1016/j.conb.2012. 11.015)
100. Park HJ, Friston K. 2013 Structural and functional brain networks: from connections to cognition. Science 342, 1238411. (doi:10.1126/science. 1238411)
101. White JG, Southgate E, Thomson JN, Brenner S. 1986 The structure of the nervous system of the nematode Caenorhabditis elegans. Phil. Trans. R. Soc. Lond. B 314, 1-340. (doi:10.1098/rstb.1986.0056)
102. Deisseroth K. 2014 Circuit dynamics of adaptive and maladaptive behaviour. Nature 505, 309-317. (doi:10.1038/nature12982)
103. Jarrell TA, Wang Y, Bloniarz AE, Brittin CA, Xu M, Thomson JN, Albertson DG, Hall DH, Emmons SW. 2012 The connectome of a decision-making neural network. Science 337, 437-444. (doi:10.1126/science.1221762)
104. Bumbarger DJ, Riebesell M, Rödelsperger C, Sommer RJ. 2013 System-wide rewiring underlies behavioral differences in predatory and bacterialfeeding nematodes. Cell 152, 109-119. (doi:10. 1016/j.cell.2012.12.013)
105. Takemura SY et al. 2013 A visual motion detection circuit suggested by Drosophila connectomics. Nature 500, 175-181. (doi:10.1038/nature12450)
106. Chiang AS et al. 2011 Three-dimensional reconstruction of brain-wide wiring networks in Drosophila at single-cell resolution. Curr. Biol. 21, 1-11. (doi:10.1016/j.cub.2010.11.056)
107. Briggman KL, Helmstaedter M, Denk W. 2011 Wiring specificity in the direction-selectivity circuit of the retina. Nature 471, 183-188. (doi:10.1038/nature09818)
108. Helmstaedter M, Briggman KL, Turaga SC, Jain V, Seung HS, Denk W. 2013 Connectomic reconstruction of the inner plexiform layer in the mouse retina. Nature 500, 168-174. (doi:10.1038/nature12346)
109. Kim JS et al. 2014 Space-time wiring specificity supports direction selectivity in the retina. Nature 509, 331-336. (doi:10.1038/nature13240)
110. Denk W, Briggman KL, Helmstaedter M. 2012 Structural neurobiology: missing link to a mechanistic understanding of neural computation. Nat. Rev. Neurosci. 13, 351-358. (doi:10.1038/nrn3169)
111. Bock DD et al. 2011 Network anatomy and in vivo physiology of visual cortical neurons. Nature 471, 177-182. (doi:10.1038/nature09802)
112. Wang Q, Sporns O, Burkhalter A. 2012 Network analysis of corticocortical connections reveals ventral and dorsal processing streams in mouse visual cortex. J. Neurosci. 32, 4386-4399. (doi:10.1523/JNEUROSCI.6063-11.2012)
113. Zingg B et al. 2014 Neural networks of the mouse neocortex. Cell 156, 1096-1111. (doi:10.1016/j.cell. 2014.02.023)
114. Oh SW et al. 2014 A mesoscale connectome of the mouse brain. Nature 508, 207-214. (doi:10.1038/nature13186)
115. Sporns O, Bullmore ET. 2014 From connections to function: the mouse brain connectome atlas. Cell 157, 773-775. (doi:10.1016/j.cell.2014. 04.023)
116. Alivisatos AP, Chun M, Church GM, Greenspan RJ, Roukes ML, Yuste R. 2012 The brain activity map project and the challenge of functional connectomics. Neuron 74, 970-974. (doi:10.1016/j. neuron.2012.06.006)
117. Ahrens MB, Orger MB, Robson DN, Li JM, Keller PJ. 2013 Whole-brain functional imaging at cellular resolution using light-sheet microscopy. Nat. Methods 10, 413-420. (doi:10.1038/nmeth.2434)
118. Portugues R, Feierstein CE, Engert F, Orger MB. 2014 Whole-brain activity maps reveal stereotyped, distributed networks for visuomotor behavior. Neuron 81, 1328-1343. (doi:10.1016/j.neuron. 2014.01.019)
119. Portugues R, Severi KE, Wyart C, Ahrens MB. 2013 Optogenetics in a transparent animal: circuit function in the larval zebrafish. Curr. Opin. Neurobiol. 23, 119-126. (doi:10.1016/j.conb.2012. 11.001)
120. Sporns O. 2013 Making sense of brain network data. Nat. Methods 10, 491-493. (doi:10.1038/nmeth.2485)
121. Cunningham JP, Byron MY. 2014 Dimensionality reduction for large-scale neural recordings. Nat. Neurosci. 17, 1500-1509. (doi:10.1038/nn.3776)
122. Freeman J et al. 2014 Mapping brain activity at scale with cluster computing. Nat. Methods 11, 941-950. (doi:10.1038/nmeth.3041)
123. Wang Z, Chen LM, Négyessy L, Friedman RM, Mishra A, Gore JC, Roe AW. 2013 The relationship of anatomical and functional connectivity to restingstate connectivity in primate somatosensory cortex. Neuron 78, 1116-1126. (doi:10.1016/j.neuron. 2013.04.023)
124. Vincent JL et al. 2007 Intrinsic functional architecture in the anaesthetized monkey brain. Nature 447, 83-86. (doi:10.1038/nature05758)
125. Adachi Y, Osada T, Sporns O, Watanabe T, Matsui T, Miyamoto K, Miyashita Y. 2012 Functional connectivity between anatomically unconnected areas is shaped by collective network-level effects in the macaque cortex. Cereb. Cortex 22, 1586-1592. (doi:10.1093/cercor/bhr234)
126. Miranda-Dominguez O, Mills BD, Grayson D, Woodall A, Grant KA, Kroenke CD, Fair DA. 2014 Bridging the gap between the human and macaque connectome: a quantitative comparison of global interspecies structure-function relationships and network topology. J. Neurosci. 34, 5552-5563. (doi:10.1523/JNEUROSCI.4229-13.2014)
127. Honey CJ, Sporns O, Cammoun L, Gigandet X, Thiran JP, Meuli R, Hagmann P. 2009 Predicting human resting-state functional connectivity from structural connectivity. Proc. Natl Acad. Sci. USA 106, 2035-2040. (doi:10.1073/pnas. 0811168106)
128. Skudlarski P, Jagannathan K, Calhoun VD, Hampson M, Skudlarska BA, Pearlson G. 2008 Measuring brain connectivity: diffusion tensor imaging validates resting state temporal correlations. Neuroimage 43, 554-561. (doi:10.1016/j.neuroimage.2008.07.063)
129. Hermundstad AM et al. 2013 Structural foundations of resting-state and task-based functional connectivity in the human brain. Proc. Natl Acad. Sci. USA 110, 6169-6174. (doi:10.1073/pnas. 1219562110)
130. Hermundstad AM et al. 2014 Structurallyconstrained relationships between cognitive states in the human brain. PLoS Comput. Biol. 10, e1003591. (doi:10.1371/journal.pcbi.1003591)
131. Krienen FM, Yeo BT, Buckner RL. 2014 Reconfigurable task-dependent functional coupling modes cluster around a core functional architecture. Phil. Trans. R. Soc. B 369, 20130526. (doi:10.1098/rstb.2013.0526)
132. Johnston JM, Vaishnavi SN, Smyth MD, Zhang D, He BJ, Zempel JM, Shimony JS, Snyder AZ, Raichle ME. 2008 Loss of resting interhemispheric functional connectivity after complete section of the corpus callosum. J. Neurosci. 28, 6453-6458. (doi:10. 1523/JNEUROSCI.0573-08.2008)
133. O’Reilly JX et al. 2013 Causal effect of disconnection lesions on interhemispheric functional connectivity in rhesus monkeys. Proc. Natl Acad. Sci. USA 110, 13 982-13 987. (doi:10.1073/pnas.1305062110)
134. van den Heuvel MP, Sporns O. 2013 Network hubs in the human brain. Trends Cogn. Sci. 17, 683-696. (doi:10.1016/j.tics.2013.09.012)
135. Stam CJ. 2014 Modern network science of neurological disorders. Nat. Rev. Neurosci. 15, 683-695. (doi:10.1038/nrn3801)
136. Cocchi L, Harding IH, Lord A, Pantelis C, Yucel M, Zalesky A. 2014 Disruption of structure-function coupling in the schizophrenia connectome. Neuroimage Clin. 4, 779-787. (doi:10.1016/j.nicl. 2014.05.004)
137. Zhou J, Seeley WW. 2014 Network dysfunction in Alzheimer’s disease and frontotemporal dementia: implications for psychiatry. Biol. Psychiatry 75, 565-573. (doi:10.1016/j.biopsych.2014.01.020)
138. Luft CDB, Pereda E, Banissy MJ, Bhattacharya J. 2014 Best of both worlds: promise of combining brain stimulation and brain connectome. Front. Syst. Neurosci. 8, 132
139. Deco G, Jirsa VK, McIntosh AR. 2011 Emerging concepts for the dynamical organization of restingstate activity in the brain. Nat. Rev. Neurosci. 12, 43-56. (doi:10.1038/nrn2961)
140. Ritter P, Schirner M, McIntosh AR, Jirsa VK. 2013 The virtual brain integrates computational modeling and multimodal neuroimaging. Brain Connect. 3, 121-145. (doi:10.1089/brain.2012.0120)
141. Honey CJ, Kötter R, Breakspear M, Sporns O. 2007 Network structure of cerebral cortex shapes functional connectivity on multiple time scales. Proc. Natl Acad. Sci. USA 104, 10 240-10 245. (doi:10.1073/pnas.0701519104)
142. Deco G, Jirsa V, McIntosh AR, Sporns O, Kötter R. 2009 Key role of coupling, delay, and noise in resting brain fluctuations. Proc. Natl Acad. Sci. USA 106, 10 302-10 307. (doi:10.1073/pnas. 0901831106)
143. Hansen ECA, Battaglia D, Spiegler A, Deco G, Jirsa VK. 2015 Functional connectivity dynamics: modeling the switching behavior of the resting state. Neuroimage 105, 525-535. (doi:10.1016/j.neuroimage.2014.11.001)
144. Alstott J, Breakspear M, Hagmann P, Cammoun L, Sporns O. 2009 Modeling the impact of lesions in the human brain. PLoS Comput. Biol. 5, e1000408. (doi:10.1371/journal.pcbi.1000408)
145. de Haan W, Mott K, van Straaten EC, Scheltens P, Stam CJ. 2012 Activity dependent degeneration explains hub vulnerability in Alzheimer’s disease. PLoS Comput. Biol. 8, e1002582. (doi:10.1371/journal.pcbi.1002582)
146. Cabral J, Fernandes HM, Van Hartevelt TJ, James AC, Kringelbach ML, Deco G. 2013 Structural connectivity in schizophrenia and its impact on the dynamics of spontaneous functional networks. Chaos 23, 046111. (doi:10.1063/1.4851117)
147. Taylor PN, Kaiser M, Dauwels J. 2014 Structural connectivity based whole brain modelling in epilepsy. J. Neurosci. Methods 236, 51-57. (doi:10. 1016/j.jneumeth.2014.08.010)
148. Goñi J et al. 2014 Resting-brain functional connectivity predicted by analytic measures of network communication. Proc. Natl Acad. Sci. USA 111, 833-838. (doi:10.1073/pnas.1315529111)
149. Abdelnour F, Voss HU, Raj A. 2014 Network diffusion accurately models the relationship between structural and functional brain connectivity networks. Neuroimage 90, 335-347. (doi:10.1016/j.neuroimage.2013.12.039)
150. Mšić B, Sporns O, McIntosh AR. 2014 Communication efficiency and congestion of signal traffic in large-scale brain networks. PLoS Comput. Biol. 10, e1003427. (doi:10.1371/journal.pcbi.1003427)
151. Sejnowski TJ, Churchland PS, Movshon JA. 2014 Putting big data to good use in neuroscience. Nat. Neurosci. 17, 1440-1441. (doi:10.1038/nn.3839)