Resolving Anatomical and Functional Structure in Human Brain Organization: Identifying Mesoscale Organization in Weighted Network Representations

PLoS Computational Biology

Volumn 10, Issue 10, 2014, Pages

  Lohse, Christian ^a   Bassett, Danielle S ^b,c   Lim, Kelvin O ^d   Carlson, Jean M ^b  

^a UNIVERSITY OF HEIDELBERG   (Germany)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c UNIVERSITY OF PENNSYLVANIA   (United States)

^d UNIVERSITY OF MINNESOTA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DIAGNOSIS; GRAPHIC METHODS; NETWORK ARCHITECTURE;

ANATOMICAL STRUCTURES; BRAIN ANATOMY; BRAIN FUNCTIONS; FUNCTIONAL STRUCTURE; HUMAN BRAIN; MESO SCALE; MESOSCALE STRUCTURE; NETWORK REPRESENTATION; WEIGHTED GRAPH; WEIGHTED NETWORKS;

BRAIN;

ADULT; ALGORITHM; ARTICLE; BOLD SIGNAL; BRAIN FUNCTION; BRAIN REGION; CLINICAL ARTICLE; CONNECTOME; FEMALE; FUNCTIONAL MAGNETIC RESONANCE IMAGING; GEOMETRY; HUMAN; MALE; MATHEMATICAL COMPUTING; MATHEMATICAL MODEL; MULTIRESOLUTION NETWORK ANALYSIS; NERVE CELL NETWORK; NEUROANATOMY; NEUROIMAGING; NEUROSCIENCE; SCHIZOPHRENIA; ANATOMY AND HISTOLOGY; BIOLOGICAL MODEL; BIOLOGY; BRAIN; MIDDLE AGED; NERVE TRACT; PATHOLOGY; PHYSIOLOGY;

ADULT; BRAIN; COMPUTATIONAL BIOLOGY; FEMALE; HUMANS; MALE; MIDDLE AGED; MODELS, NEUROLOGICAL; NERVE NET; NEURAL PATHWAYS; SCHIZOPHRENIA;

EID: 84908355019     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1003712     Document Type: Article

References (81)

1. Bassett DS, Meyer-Lindenberg A, Achard S, Duke T, Bullmore E, (2006) Adaptive reconfiguration of fractal small-world human brain functional networks. Proc Natl Acad Sci USA 103: 19518–19523.
2. Bassett DS, Bullmore E, (2006) Small-world brain networks. The Neuroscientist 12: 512–523.
3. Bullmore E, Sporns O, (2009) Complex brain networks: graph theoretical analysis of structural and functional systems. Nat Rev Neurosci 10: 186–98.
4. Bullmore ET, Bassett DS, (2011) Brain graphs: graphical models of the human brain connectome. Ann Rev Clin Psych 7: 113–140.
5. Kaiser M, (2011) A tutorial in connectome analysis: topological and spatial features of brain networks. Neuroimage 57: 892–907.
6. Sporns O (2011) The human connectome: a complex network. Ann N Y Acad Sci 1224.
7. Stam CJ, van Straaten EC, (2012) The organization of physiological brain networks. Clin Neurophysiol 123: 1067–87.
8. Bassett DS, Bullmore ET, (2009) Human brain networks in health and disease. Curr Opin Neurol 22: 340–7.
9. Fornito A, Zalesky A, Pantelis C, Bullmore ET, (2012) Schizophrenia, neuroimaging and connectomics. Neuroimage 62: 2296–2314.
10. Fornito A, Bullmore ET, (2012) Connectomic intermediate phenotypes for psychiatric disorders. Front Psychiatry 3: 32.
11. He Y, Chen Z, Gong G, Evans A, (2009) Neuronal networks in Alzheimer's disease. Neuroscientist 15: 333–350.
12. He Y, Evans A, (2010) Graph theoretical modeling of brain connectivity. Curr Opin Neurol 23: 341–350.
13. van Wijk BCM, Stam CJ, Da_ertshofer A, (2010) Comparing brain networks of different size and connectivity density using graph theory. PLoS ONE 5: e13701.
14. Ginestet CE, Nichols TE, Bullmore ET, Simmons A, (2011) Brain network analysis: Separating cost from topology using cost-integration. PLoS ONE 6: e21570.
15. Bassett DS, Nelson BG, Mueller BA, Camchong J, Lim KO, (2011) Altered resting state complexity in schizophrenia. NeuroImage, Schizophrenia 59: 2196–2207.
16. Fornito A, Zalesky A, Breakspear M, (2013) Graph analysis of the human connectome: Promise, progress, and pitfalls. Neuroimage 80: 426–444.
17. Hagmann P, Cammoun L, Gigandet X, Meuli R, Honey CJ, et al. (2008) Mapping the structural core of human cerebral cortex. PLOS Biology 6: e159.
18. Porter MA, Onnela JP, Mucha PJ (2009) Communities in networks. Not Amer Math Soc 56: 1082–1097, 1164–1166.
19. Fortunato S, (2010) Community detection in graphs. Phys Rep 486: 75–174.
20. Bassett DS, Brown JA, Deshpande V, Carlson JM, Grafton ST, (2011) Conserved and variable architecture of human white matter connectivity. NeuroImage 54: 1262–1279.
21. Gallos LK, Sigman M, Makse HA, (2012) The conundrum of functional brain networks: small-world efficiency or fractal modularity. Front Physiol 3: 123.
22. Meunier D, Lambiotte R, Fornito A, Ersche KD, Bullmore ET, (2009) Hierarchical modularity in human brain functional networks. Front Neuroinform 3: 37.
23. Meunier D, Lambiotte R, Bullmore ET, (2010) Modular and hierarchically modular organization of brain networks. Front Neurosci 4: 200.
24. Zhou C, Zemanová L, Zamora G, Hilgetag CC, Kurths J, (2006) Hierarchical organization unveiled by functional connectivity in complex brain networks. Phys Rev Lett 97: 238103.
25. Wang SJ, Hilgetag CC, Zhou C, (2011) Sustained activity in hierarchical modular neural networks: self-organized criticality and oscillations. Front Comput Neurosci 5: 30.
26. Kaiser M, Hilgetag CC, (2010) Optimal hierarchical modular topologies for producing limited sustained activation of neural networks. Front Neuroinform 4: 8.
27. Rubinov M, Sporns O, Thivierge JP, Breakspear M, (2011) Neurobiologically realistic determinants of self-organized criticality in networks of spiking neurons. PLoS Comput Biol 7: e1002038.
28. Klimm F, Bassett DS, Carlson JM, Mucha PJ, (2014) Resolving structural variability in network models and the brain. PLoS Comp Biol 10: e1003491.
29. Doron KW, Bassett DS, Gazzaniga MS, (2012) Dynamic network structure of interhemispheric coordination. Proc Natl Acad Sci U S A 109: 18661–18668.
30. Tzourio-Mazoyer N, Landeau B, Papathanassiou D, Crivello F, Etard O, et al. (2002) Automated anatomical labeling of activations in SPM using a macroscopic anatomical parcellation of the MNI MRI single-subject brain. Neuroimage 15: 273–289.
31. Camchong J, MacDonald III AW, Bell C, Mueller BA, Lim KO, (2009) Altered functional and anatomical connectivity in schizophrenia. Schizophrenia Bulletin 37: 640–650.
32. Rubinov M, Sporns O, (2010) Complex network measures of brain connectivity: Uses and interpretations. NeuroImage 52: 1059–69.
33. Sporns O, (2006) Small-world connectivity, motif composition, and complexity of fractal neuronal connections. BioSystems 85: 55–64.
34. Onnela JP, Fenn DJ, Reid S, Porter MA, Mucha PJ, et al. (2012) Taxonomies of networks from community structure. Phys Rev E 86.
35. Travers J, Milgram S, (1969) An experimental study of the small world problem. Sociometry 32: 425–443.
36. Watts DJ, Strogatz SH, (1998) Collective dymanics of ‘small-world’ networks. Nature 393: 440–442.
37. Ravasz E, Barabási AL, (2003) Hierarchical organization in complex networks. Phys Rev E 67: 026112.
38. Newman MEJ (2010) Networks - An Introduction. Oxford University Press, 1st edition.
39. Newman ME, (2004) Fast algorithm for detecting community structure in networks. Phys Rev E 69: 066133.
40. Newman MEJ, Girvan M, (2004) Finding and evaluating community structure in networks. Phys Rev E 69: 026113.
41. Newman MEJ, (2006) Modularity and community structure in networks. Proceedings of the National Academy of Sciences 103: 8577–8582.
42. Blondel VD, Guillaume JL, Lambiotte R, Lefebvre E (2008) Fast unfolding of community hierarchies in large networks. J Stat Mech: P10008.
43. Jutla IS, Lucas GSJ, Mucha PJ (2011–2012) A generalized louvain method for community detection implemented in matlab. http://netwikiamathuncedu/GenLouvain/GenLouvain.
44. Traag VA, Bruggeman J, (2009) Community detection in networks with positive and negative links. Phys Rev E 80: 036115.
45. Arenas A, Fernández A, Gómez S, (2008) Analysis of the structure of complex networks at different resolution levels. New Journal of Physics 10: 053039.
46. Good BH, de Montjoye YA, Clauset A, (2010) Performance of modularity maximization in practical contexts. Phys Rev E 81: 046106.
47. Estrada E, Rodríguez-Velázquez JA, (2005) Spectral measures of bipartivity in complex networks. Phys Rev E 72: 046105.
48. Newman MEJ, (2006) Finding community structure in networks using the eigenvectors of matrices. Phys Rev E 74: 036104.
49. Schwarz AJ, McGonigle J, (2011) Negative edges and soft thresholding in complex network analysis of resting state functional connectivity data. NeuroImage 55: 1132–1146.
50. Zhang B, Horvath S, (2005) A general framework for weighted gene co-expression network analysis. Statistical Applications in Genetics and Molecular Biology 4: 17.
51. Fortunato S, Barthélemy M, (2006) Resolution limit in community detection. PNAS 104: 36–41.
52. Reichardt J, Bornholdt S, (2006) Statistical mechanics of community detection. Physical Review 74: 016110.
53. Reichardt J, Bornholdt S, (2007) Partitioning and modularity of graphs with arbitrary degree distribution. Phys Rev E 76: 015102.
54. Bassett DS, Greenfield DL, Meyer-Lindenberg A, Weinberger DR, Moore S, et al. (2010) Efficient physical embedding of topologically complex information processing networks in brains and computer circuits. PLoS Comput Biol 6: e1000748.
55. Lynall ME, Bassett DS, Kerwin R, McKenna P, Muller U, et al. (2010) Functional connectivity and brain networks in schizophrenia. J Neurosci 30: 9477–9487.
56. Rubinov M, Knock SA, Stam CJ, Micheloyannis S, Harris AW, et al. (2009) Small-world properties of nonlinear brain activity in schizophrenia. Hum Brain Mapp 30: 403–416.
57. Siebenhühner F, Weiss SA, Coppola R, Weinberger DR, Bassett DS (2012) Intra- and inter-frequency brain network structure in health and schizophrenia. arXiv 1209.0729.
58. Pachou E, Vourkas M, Simos P, Smit D, Stam CJ, et al. (2008) Working memory in schizophrenia: an EEG study using power spectrum and coherence analysis to estimate cortical activation and network behavior. Brain Topogr 21: 128–137.
59. Bassett DS, Bullmore ET, Meyer-Lindenberg A, Apud JA, Weinberger DR, et al. (2009) Cognitive fitness of cost-effcient brain functional networks. 106: 11747–11752.
60. Stephan KE, Baldeweg T, Friston KJ, (2006) Synaptic plasticity and dysconnection in schizophrenia. Biol Psychiatry 59: 929–939.
61. Weinberger DR, Berman KF, Suddath R, Torrey EF, (1992) Evidence of dysfunction of a prefrontallimbic network in schizophrenia: A magnetic resonance imaging and regional cerebral blood ow study of discordant monozygotic twins. Am J Psychiatry 149: 890–897.
62. Volkow ND, Wolf AP, Brodie JD, Cancro R, Overall JE, et al. (1988) Brain interactions in chronic schizophrenics under resting and activation conditions. Schizophr Res 1: 47–53.
63. Bassett DS, Siebenhühner F (2012) Multiscale Network Organization in the Human Brain, Wiley. Multiscale Analysis and Nonlinear Dynamics: From Genes to the Brain. 328 p.
64. Bassett DS, Bullmore E, Verchinski BA, Mattay VS, Weinberger DR, et al. (2008) Hierarchical organization of human cortical networks in health and schizophrenia. J Neurosci 28: 9239–9248.
65. Achard S, Salvador R, Whitcher B, Suckling J, Bullmore E, (2006) A resilient, low-frequency, small-world human brain functional network with highly connected association cortical hubs. J Neurosci 26: 63–72.
66. Mengotti P, D'Agostini S, Terlevic R, De Colle C, Biasizzo E, et al. (2011) Altered white matter integrity and development in children with autism: a combined voxel-based morphometry and diffusion imaging study. Brain Res Bull 84: 189–95.
67. Sugranyes G, Kyriakopoulos M, Dima D, O'Muircheartaigh J, Corrigall R, et al. (2012) Multimodal analyses identify linked functional and white matter abnormalities within the working memory network in schizophrenia. Schizophr Res 138: 136–42.
68. Sporns O (2010) Networks of the Brain. MIT Press. 424 p.
69. Barthelemy M, (2011) Spatial networks. Physics Reports 499: 1–101.
70. Kaiser M, Hilgetag CC, (2006) Nonoptimal component placement, but short processing paths, due to long-distance projections in neural systems. PLoS Comput Biol 2: e95.
71. Chen BL, Hall DH, Chklovskii DB, (2006) Wiring optimization can relate neuronal structure and function. Proc Natl Acad Sci U S A 103: 4723–4728.
72. Raj A, Chen YH, (2011) The wiring economy principle: connectivity determines anatomy in the human brain. PLoS One 6: e14832.
73. Bullmore E, Sporns O, (2012) The economy of brain network organization. Nat Rev Neurosci 13: 336–49.
74. Wedeen VJ, Rosene DL, Wang R, Dai G, Mortazavi F, et al. (2012) The geometric structure of the brain fiber pathways. Science 335: 1628–1634.
75. Vértes PE, Alexander-Bloch AF, Gogtay N, Giedd JN, Rapoport JL, et al. (2012) Simple models of human brain functional networks. Proc Natl Acad Sci U S A 109: 5868–5673.
76. Alexander-Bloch AF, Gogtay N, Meunier D, Birn R, Clasen L, et al. (2010) Disrupted modularity and local connectivity of brain functional networks in childhood-onset schizophrenia. Front Syst Neurosci 4: 147.
77. Fair DA, Cohen AL, Power JD, Dosenbach NU, Church JA, et al. (2009) Functional brain networks develop from a \local to distributed″ organization. PLoS Comput Biol 5: e1000381.
78. Chen ZJ, He Y, Rosa-Neto P, Germann J, Evans AC, (2008) Revealing modular architecture of human brain structural networks by using cortical thickness from MRI. Cereb Cortex 18: 2374–2381.
79. Miyata J, Sasamoto A, Koelkebeck K, Hirao K, Ueda K, et al. (2012) Abnormal asymmetry of white matter integrity in schizophrenia revealed by voxelwise diffusion tensor imaging. Hum Brain Mapp 33: 1741–1749.
80. Knöchel C, Oertel-Knöchel V, Schönmeyer R, Rotarska-Jagiela A, van de Ven V, et al. (2012) Interhemispheric hypoconnectivity in schizophrenia: fiber integrity and volume differences of the corpus callosum in patients and unaffected relatives. Neuroimage 59: 926–934.
81. Henderson JA, Robinson PA, (2011) Geometric effects on complex network structure in the cortex. Phys Rev Lett 107: 018102.