Brain connectivity analysis: A short survey

Computational Intelligence and Neuroscience

Volumn 2012, Issue , 2012, Pages

  Lang, E W ^a   Tome A M ^b   Keck, I R ^a   Gorriz Saez J M ^c   Puntonet, C G ^d  

^a UNIVERSITY OF REGENSBURG   (Germany)

^b UNIVERSITY OF AVEIRO   (Portugal)

^c UNIVERSITY OF GRANADA   (Spain)

^d UNIVERSITY OF GRANADA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

ABSTRACT CONCEPT; BRAIN CONNECTIVITY; FUNCTIONAL IMAGING; GRAPHICAL MODEL; RESTING STATE; STATIC AND DYNAMIC;

FUNCTIONAL NEUROIMAGING; IMAGING TECHNIQUES;

SURVEYS;

BIOLOGICAL MODEL; BRAIN; CONNECTOME; HUMAN; IMAGE PROCESSING; METHODOLOGY; NERVE CELL NETWORK; PHYSIOLOGY; REST; REVIEW;

BRAIN; CONNECTOME; HUMANS; IMAGE PROCESSING, COMPUTER-ASSISTED; MODELS, NEUROLOGICAL; NERVE NET; REST;

EID: 84869061502     PISSN: 16875265     EISSN: 16875273     Source Type: Journal    
DOI: 10.1155/2012/412512     Document Type: Review

References (166)

1. Sporns O., Connectome 2010 5 Scholarpedia
2. Sporns O., Tononi G., Kötter R., The human connectome: a structural description of the human brain. PLoS Computational Biology 2005 1 4 e42 2-s2.0-34548090183
3. Friston K. J., Functional and effective connectivity in neuroimaging: a synthesis. Human Brain Mapping 1994 2 1-2 56 78 2-s2.0-0028190347 (Pubitemid 124000442)
4. Friston K. J., Functional and effective connectivity in neuroimaging: a synthesis. Human Brain Mapping 1994 2 1-2 56 78 2-s2.0-0028190347 (Pubitemid 124000442)
5. Horwitz B., The elusive concept of brain connectivity. NeuroImage 2003 19 2 466 470 2-s2.0-0042738946 10.1016/S1053-8119(03)00112-5 (Pubitemid 39665696)
6. Johansen-Berg H., Rushworth M. F. S., Using diffusion imaging to study human connectional anatomy. Annual Review of Neuroscience 2009 32 75 94 2-s2.0-67651048947 10.1146/annurev.neuro.051508.135735
7. Axer M., Amunts K., Grässel D., Palm C., Dammers J., Axer H., Pietrzyk U., Zilles K., A novel approach to the human connectome: ultra-high resolution mapping of fiber tracts in the brain. NeuroImage 2011 54 2 1091 1101 2-s2.0-78649703251 10.1016/j.neuroimage.2010.08.075
8. Reijneveld J. C., Ponten S. C., Berendse H. W., Stam C. J., The application of graph theoretical analysis to complex networks in the brain. Clinical Neurophysiology 2007 118 11 2317 2331 2-s2.0-35148829514 10.1016/j.clinph.2007.08.010 (Pubitemid 47539271)
9. Bullmore E., Sporns O., Complex brain networks: graph theoretical analysis of structural and functional systems. Nature Reviews Neuroscience 2009 10 3 186 198 2-s2.0-60549103853 10.1038/nrn2575
10. Bullmore E. T., Bassett D. S., Brain graphs: graphical models of the human brain connectome. Annual Review of Clinical Psychology 2011 7 113 140 2-s2.0-79953664777 10.1146/annurev-clinpsy-040510-143934
11. Guye M., Bettus G., Bartolomei F., Cozzone P. J., Graph theoretical analysis of structural and functional connectivity MRI in normal and pathological brain networks. Magnetic Resonance Materials in Physics, Biology and Medicine 2010 23 5-6 409 421 2-s2.0-78651292288 10.1007/s10334-010-0205-z
12. Fornito A., Zalesky A., Harding I. H., Cocchi L., Yücel M., Pantelis C., Bullmore E. T., Whole-brain anatomical networks: does the choice of nodes matter? NeuroImage 2010 50 3 970 983 2-s2.0-77349095673 10.1016/j.neuroimage. 2009.12.027
13. Fox M. D., Raichle M. E., Spontaneous fluctuations in brain activity observed with functional magnetic resonance imaging. Nature Reviews Neuroscience 2007 8 9 700 711 2-s2.0-34548014282 10.1038/nrn2201 (Pubitemid 47283145)
14. van de Ven V. G., Formisano E., Prvulovic D., Roeder C. H., Linden D. E. J., Functional connectivity as revealed by spatial independent component analysis of fMRI measurements during rest. Human Brain Mapping 2004 22 3 165 178 2-s2.0-3042776628 10.1002/hbm.20022 (Pubitemid 38890996)
15. He D., Zeng Z., Stone L., Detecting generalized synchrony: an improved approach. Physical Review E 2003 67 2 026223
16. Berger H., Über das Elektrenkephalogramm des Menschen. Archiv für Psychiatrie und Nervenkrankheiten 1929 87 1 527 570 2-s2.0-34250548621 10.1007/BF01797193
17. Raichle M. E., MacLeod A. M., Snyder A. Z., Powers W. J., Gusnard D. A., Shulman G. L., A default mode of brain function. Proceedings of the National Academy of Sciences of the United States of America 2001 98 2 676 682 2-s2.0-0035895264 10.1073/pnas.98.2.676 (Pubitemid 32105102)
18. Greicius M. D., Krasnow B., Reiss A. L., Menon V., Functional connectivity in the resting brain: a network analysis of the default mode hypothesis. Proceedings of the National Academy of Sciences of the United States of America 2003 100 1 253 258 2-s2.0-0037422586 10.1073/pnas.0135058100 (Pubitemid 36078061)
19. Broyd S. J., Demanuele C., Debener S., Helps S. K., James C. J., Sonuga-Barke E. J. S., Default-mode brain dysfunction in mental disorders: a systematic review. Neuroscience and Biobehavioral Reviews 2009 33 3 279 296 2-s2.0-59449100479 10.1016/j.neubiorev.2008.09.002
20. Damoiseaux J. S., Rombouts S. A. R. B., Barkhof F., Scheltens P., Stam C. J., Smith S. M., Beckmann C. F., Consistent resting-state networks across healthy subjects. Proceedings of the National Academy of Sciences of the United States of America 2006 103 37 13848 13853 2-s2.0-33748796093 10.1073/pnas.0601417103 (Pubitemid 44413996)
21. Mantini D., Perrucci M. G., Del Gratta C., Romani G. L., Corbetta M., Electrophysiological signatures of resting state networks in the human brain. Proceedings of the National Academy of Sciences of the United States of America 2007 104 32 13170 13175 2-s2.0-34548797958 10.1073/pnas.0700668104 (Pubitemid 351737611)
22. Greicius M. D., Kiviniemi V., Tervonen O., Vainionpää V., Alahuhta S., Reiss A. L., Menon V., Persistent default-mode network connectivity during light sedation. Human Brain Mapping 2008 29 7 839 847 2-s2.0-44449127510 10.1002/hbm.20537 (Pubitemid 351813085)
23. Jafri M. J., Pearlson G. D., Stevens M., Calhoun V. D., A method for functional network connectivity among spatially independent resting-state components in schizophrenia. NeuroImage 2008 39 4 1666 1681 2-s2.0-38749089029 10.1016/j.neuroimage.2007.11.001
24. Sonuga-Barke E. J. S., Castellanos F. X., Spontaneous attentional fluctuations in impaired states and pathological conditions: a neurobiological hypothesis. Neuroscience and Biobehavioral Reviews 2007 31 7 977 986 2-s2.0-34548251341 10.1016/j.neubiorev.2007.02.005 (Pubitemid 47332617)
25. Greicius M. D., Supekar K., Menon V., Dougherty R. F., Resting-state functional connectivity reflects structural connectivity in the default mode network. Cerebral Cortex 2009 19 1 72 78 2-s2.0-57749172272 10.1093/cercor/ bhn059
26. Greicius M. D., Srivastava G., Reiss A. L., Menon V., Default-mode network activity distinguishes Alzheimer's disease from healthy aging: evidence from functional MRI. Proceedings of the National Academy of Sciences of the United States of America 2004 101 13 4637 4642 2-s2.0-1842427969 10.1073/pnas.0308627101 (Pubitemid 38437463)
27. Zhang L. J., Yang G., Yin J., Liu Y., Qi J., Abnormal default-mode network activation in cirrhotic patients: a functional magnetic resonance imaging study. Acta Radiologica 2007 48 7 781 787 2-s2.0-34548348177 10.1080/02841850701422161 (Pubitemid 47338647)
28. Eichele T., Debener S., Calhoun V. D., Specht K., Engel A. K., Hugdahl K., Von Cramon D. Y., Ullsperger M., Prediction of human errors by maladaptive changes in event-related brain networks. Proceedings of the National Academy of Sciences of the United States of America 2008 105 16 6173 6178 2-s2.0-43149121112 10.1073/pnas.0708965105 (Pubitemid 351758418)
29. Singh K. D., Fawcett I. P., Transient and linearly graded deactivation of the human default-mode network by a visual detection task. NeuroImage 2008 41 1 100 112 2-s2.0-42649138197 10.1016/j.neuroimage.2008.01.051
30. Wilson S. M., Molnar-Szakacs I., Iacoboni M., Beyond superior temporal cortex: intersubject correlations in narrative speech comprehension. Cerebral Cortex 2008 18 1 230 242 2-s2.0-36849024459 10.1093/cercor/bhm049 (Pubitemid 350233069)
31. Horovitz S. G., Fukunaga M., De Zwart J. A., Van Gelderen P., Fulton S. C., Balkin T. J., Duyn J. H., Low frequency BOLD fluctuations during resting wakefulness and light sleep: a simultaneous EEG-fMRI study. Human Brain Mapping 2008 29 6 671 682 2-s2.0-40649090533 10.1002/hbm.20428 (Pubitemid 351794122)
32. Esposito F., Bertolino A., Scarabino T., Latorre V., Blasi G., Popolizio T., Tedeschi G., Cirillo S., Goebel R., Di Salle F., Independent component model of the default-mode brain function: assessing the impact of active thinking. Brain Research Bulletin 2006 70 46 263 269 2-s2.0-33749427408 10.1016/j.brainresbull.2006.06.012 (Pubitemid 44508789)
33. Salvador R., Martínez A., Pomarol-Clotet E., Gomar J., Vila F., Sarró S., Capdevila A., Bullmore E., A simple view of the brain through a frequency-specific functional connectivity measure. NeuroImage 2008 39 1 279 289 2-s2.0-36148947506 10.1016/j.neuroimage.2007.08.018 (Pubitemid 350110534)
34. Buzsáki G., Draguhn A., Neuronal olscillations in cortical networks. Science 2004 304 5679 1926 1929 2-s2.0-3042523540 10.1126/science. 1099745 (Pubitemid 38822177)
35. Fox M. D., Snyder A. Z., Zacks J. M., Raichle M. E., Coherent spontaneous activity accounts for trial-to-trial variability in human evoked brain responses. Nature Neuroscience 2006 9 1 23 25 2-s2.0-29444432367 10.1038/nn1616 (Pubitemid 43011904)
36. Kelly A. M. C., Uddin L. Q., Biswal B. B., Castellanos F. X., Milham M. P., Competition between functional brain networks mediates behavioral variability. NeuroImage 2008 39 1 527 537 2-s2.0-36048936678 10.1016/j.neuroimage.2007.08.008 (Pubitemid 350102198)
37. Greicius M. D., Flores B. H., Menon V., Glover G. H., Solvason H. B., Kenna H., Reiss A. L., Schatzberg A. F., Resting-state functional connectivity in major depression: abnormally increased contributions from subgenual cingulate cortex and thalamus. Biological Psychiatry 2007 62 5 429 437 2-s2.0-34548039062 10.1016/j.biopsych.2006.09.020 (Pubitemid 47284017)
38. Castellanos F. X., Margulies D. S., Kelly C., Uddin L. Q., Ghaffari M., Kirsch A., Shaw D., Shehzad Z., Di Martino A., Biswal B., Sonuga-Barke E. J. S., Rotrosen J., Adler L. A., Milham M. P., Cingulate-precuneus interactions: a new locus of dysfunction in adult attention-deficit hyperactivity disorder. Biological Psychiatry 2008 63 3 332 337 2-s2.0-38049078773 10.1016/j.biopsych. 2007.06.025
39. Tinaz S., Schendan H. E., Stern C. E., Fronto-striatal deficit in Parkinson's disease during semantic event sequencing. Neurobiology of Aging 2008 29 3 397 407 2-s2.0-38949127252 10.1016/j.neurobiolaging.2006.10.025 (Pubitemid 351215589)
40. Fransson P., Skiöld B., Horsch S., Nordell A., Blennow M., Lagercrantz H., Åden U., Resting-state networks in the infant brain. Proceedings of the National Academy of Sciences of the United States of America 2007 104 39 15531 15536 2-s2.0-34848875130 10.1073/pnas.0704380104 (Pubitemid 47502951)
41. Fair D. A., Cohen A. L., Dosenbach N. U. F., Church J. A., Miezin F. M., Barch D. M., Raichle M. E., Petersen S. E., Schlaggar B. L., The maturing architecture of the brain's default network. Proceedings of the National Academy of Sciences of the United States of America 2008 105 10 4028 4032 2-s2.0-41649108053 10.1073/pnas.0800376105 (Pubitemid 351723518)
42. Thomason M. E., Chang C. E., Glover G. H., Gabrieli J. D. E., Greicius M. D., Gotlib I. H., Default-mode function and task-induced deactivation have overlapping brain substrates in children. NeuroImage 2008 41 4 1493 1503 2-s2.0-44649100116 10.1016/j.neuroimage.2008.03.029
43. Fransson P., How default is the default mode of brain function?. Further evidence from intrinsic BOLD signal fluctuations. Neuropsychologia 2006 44 14 2836 2845 2-s2.0-33749427596 10.1016/j.neuropsychologia.2006.06.017 (Pubitemid 44511969)
44. Fox M. D., Snyder A. Z., Vincent J. L., Corbetta M., Van Essen D. C., Raichle M. E., The human brain is intrinsically organized into dynamic, anticorrelated functional networks. Proceedings of the National Academy of Sciences of the United States of America 2005 102 27 9673 9678 2-s2.0-22144469412 10.1073/pnas.0504136102 (Pubitemid 40981739)
45. Raichle M. E., Snyder A. Z., A default mode of brain function: a brief history of an evolving idea. NeuroImage 2007 37 4 1083 1090 2-s2.0-34548535101 10.1016/j.neuroimage.2007.02.041 (Pubitemid 47385262)
46. Gopinath K., Ringe W., Goyal A., Carter K., Dinse H. R., Haley R., Briggs R., Striatal functional connectivity networks are modulated by fMRI resting state conditions. NeuroImage 2011 54 1 380 388 2-s2.0-77957955436 10.1016/j.neuroimage.2010.07.021
47. Morcom A. M., Fletcher P. C., Does the brain have a baseline? Why we should be resisting a rest. NeuroImage 2007 37 4 1073 1082 2-s2.0-34548544198 10.1016/j.neuroimage.2006.09.013 (Pubitemid 47385254)
48. van den Heuvel M. P., Hulshoff Pol H. E., Exploring the brain network: a review on resting-state fMRI functional connectivity. European Neuropsychopharmacology 2010 20 8 519 534 2-s2.0-77953961776 10.1016/j.euroneuro.2010.03.008
49. Margulies D. S., Böttger J., Long X., Lv Y., Kelly C., Schäfer A., Goldhahn D., Abbushi A., Milham M. P., Lohmann G., Villringer A., Resting developments: a review of fMRI post-processing methodologies for spontaneous brain activity. Magnetic Resonance Materials in Physics, Biology and Medicine 2010 23 5-6 289 307 2-s2.0-78651328035 10.1007/s10334-010-0228-5
50. Zhang H. Y., Wang S. J., Xing J., Liu B., Ma Z. L., Yang M., Zhang Z. J., Teng G. J., Detection of PCC functional connectivity characteristics in resting-state fMRI in mild Alzheimer's disease. Behavioural Brain Research 2009 197 1 103 108 2-s2.0-57649224343 10.1016/j.bbr.2008.08.012
51. Sorg C., Riedl V., Perneczky R., Kurz A., Wohlschläger A. M., Impact of Alzheimer's disease on the functional connectivity of spontaneous brain activity. Current Alzheimer Research 2009 6 6 541 553 2-s2.0-73949095474 10.2174/156720509790147106
52. Yo T.-S., Anwander A., Descoteaux M., Fillard P., Poupon C., Knösche T. R., Quantifying brain connectivity: a comparative tractography study. Lecture Notes in Computer Science 2009 5761 1 886 893 2-s2.0-77952275234 10.1007/978-3-642-04268-3109
53. Saur D., Schelter B., Schnell S., Kratochvil D., Küpper H., Kellmeyer P., Kümmerer D., Klöppel S., Glauche V., Lange R., Mader W., Feess D., Timmer J., Weiller C., Combining functional and anatomical connectivity reveals brain networks for auditory language comprehension. NeuroImage 2010 49 4 3187 3197 2-s2.0-73749086669 10.1016/j.neuroimage.2009.11. 009
54. Chang C., Glover G. H., Time-frequency dynamics of resting-state brain connectivity measured with fMRI. NeuroImage 2010 50 1 81 98 2-s2.0-75249093217 10.1016/j.neuroimage.2009.12.011
55. Brookes M. J., Hale J. R., Zumer J. M., Stevenson C. M., Francis S. T., Barnes G. R., Owen J. P., Morris P. G., Nagarajan S. S., Measuring functional connectivity using MEG: methodology and comparison with fcMRI. NeuroImage 2011 56 3 1082 1104 2-s2.0-79955480798 10.1016/j.neuroimage.2011.02.054
56. Cabral J., Hugues E., Sporns O., Deco G., Role of local network oscillations in resting-state functional connectivity. NeuroImage 2011 57 1 130 139 2-s2.0-79956204167 10.1016/j.neuroimage.2011.04.010
57. Nunez P. L., Srinivasan R., Westdorp A. F., Wijesinghe R. S., Tucker D. M., Silberstein R. B., Cadusch P. J., EEG coherency I: statistics, reference electrode, volume conduction, Laplacians, cortical imaging, and interpretation at multiple scales. Electroencephalography and Clinical Neurophysiology 1997 103 5 499 515 2-s2.0-0030694031 10.1016/S0013-4694(97)00066-7 (Pubitemid 27505343)
58. Nunez P. L., Silberstein R. B., Shi Z., Carpenter M. R., Srinivasan R., Tucker D. M., Doran S. M., Cadusch P. J., Wijesinghe R. S., EEG coherency II: experimental comparisons of multiple measures. Clinical Neurophysiology 1999 110 3 469 486 2-s2.0-0032950093 10.1016/S1388-2457(98)00043-1 (Pubitemid 29207498)
59. Nunez P. L., Wingeier B. M., Silberstein R. B., Spatial-temporal structures of human alpha rhythms: theory, microcurrent sources, multiscale measurements, and global binding of local networks. Human Brain Mapping 2001 13 3 125 164 2-s2.0-0034979051 10.1002/hbm.1030 (Pubitemid 32565678)
60. Srinivasan R., Winter W. R., Ding J., Nunez P. L., EEG and MEG coherence: measures of functional connectivity at distinct spatial scales of neocortical dynamics. Journal of Neuroscience Methods 2007 166 1 41 52 2-s2.0-34548491999 10.1016/j.jneumeth.2007.06.026 (Pubitemid 47374807)
61. Palva S., Palva J. M., New vistas for α -frequency band oscillations. Trends in Neurosciences 2007 30 4 150 158 2-s2.0-33947613170 10.1016/j.tins.2007.02.001 (Pubitemid 46486681)
62. Kaiser J., Lutzenberger W., Human gamma-band activity: a window to cognitive processing. NeuroReport 2005 16 3 207 211 2-s2.0-14944382157 10.1097/00001756-200502280-00001 (Pubitemid 40364577)
63. Shmuel A., Leopold D. A., Neuronal correlates of spontaneous fluctuations in fMRI signals in monkey visual cortex: implications for functional connectivity at rest. Human Brain Mapping 2008 29 7 751 761 2-s2.0-44949148155 10.1002/hbm.20580 (Pubitemid 351813076)
64. Auer D. P., Spontaneous low-frequency blood oxygenation level-dependent fluctuations and functional connectivity analysis of the 'resting' brain. Magnetic Resonance Imaging 2008 26 7 1055 1064 2-s2.0-48549087974 10.1016/j.mri.2008.05.008
65. Weiss S. A., Bassett D. S., Rubinstein D., Holroyd T., Apud J., Dickinson D., Coppola R., Functional brain network characterization and adaptivity during task practice in healthy volunteers and people with Schizophrenia. Frontiers in Human Neuroscience 2011 5 81
66. Ghuman A. S., McDaniel J. R., Martin A., A wavelet-based method for measuring the oscillatory dynamics of resting-state functional connectivity in MEG. NeuroImage 2011 56 1 69 77 2-s2.0-79953048045 10.1016/j.neuroimage.2011.01. 046
67. Li K., Guo L., Nie J., Li G., Liu T., Review of methods for functional brain connectivity detection using fMRI. Computerized Medical Imaging and Graphics 2009 33 2 131 139 2-s2.0-58149234673 10.1016/j.compmedimag.2008.10.011
68. Friston K., Ashburner J. T., Kiebel S. T., Nicols T. E., Penny W. D., Statistical Parametric Mapping: The Analysis of Functional Brain Imaging 2006 New York, NY, USA Elsevier, Academic Press
69. Hyvärinen A., Karhunen J., Oja E., Independent Component Analysis 2001 New York, NY, USA John Wiley & Sons
70. Cichocki A., Amari S.-I., Adaptive Blind Signal and Image Processing 2002 New York, NY, USA Wiley
71. Stone J. V., Porrill J., Porter N. R., Wilkinson I. D., Spatiotemporal independent component analysis of event-related fMRI data using skewed probability density functions. NeuroImage 2002 15 2 407 421 2-s2.0-0036334838 10.1006/nimg.2001.0986 (Pubitemid 34852550)
72. Theis F. J., Gruber P., Keck I. R., Lang E. W., Duch W., Functional MRI analysis by a novel spatiotemporal ICA algorithm. 3696 Proceedings of the 15th International Conference on Artificial Neural Networks: Biological Inspirations (ICANN '05) September 2005 Warsaw, Poland Springer 677 682 Lecture notes in computer science
73. Theis F. J., Gruber P., Keck I. R., Lang E. W., A robust model for spatiotemporal dependencies. Neurocomputing 2008 71 1012 2209 2216 2-s2.0-44649136732 10.1016/j.neucom.2007.06.012
74. Stoika P., Selén Y., Model order selection. IEEE Signal Processing Magazine 2004 21 4 36 47
75. Ding Q., Kay S., Inconsistency of the MDL: on the performance of model order selection criteria with increasing signal-to-noise ratio. IEEE Transactions on Signal Processing 2011 59 5 1959 1969 2-s2.0-79954552464 10.1109/TSP.2011.2108293
76. Daubechies I., Roussos E., Takerkart S., Benharrosh M., Golden C., D'Ardenne K., Richter W., Cohen J. D., Haxby J., Independent component analysis for brain fMRI does not select for independence. Proceedings of the National Academy of Sciences of the United States of America 2009 106 26 10415 10422 2-s2.0-67649811101 10.1073/pnas.0903525106
77. Calhoun V. D., Liu J., Adali T., A review of group ICA for fMRI data and ICA for joint inference of imaging, genetic, and ERP data. NeuroImage 2009 45 1 S163 172 2-s2.0-65549097795 10.1016/j.neuroimage.2008.10.057
78. Seeley W. W., Crawford R. K., Zhou J., Miller B. L., Greicius M. D., Neurodegenerative diseases target large-scale human brain networks. Neuron 2009 62 1 42 52 2-s2.0-64149093013 10.1016/j.neuron.2009.03.024
79. Habas C., Kamdar N., Nguyen D., Prater K., Beckmann C. F., Menon V., Greicius M. D., Distinct cerebellar contributions to intrinsic connectivity networks. Journal of Neuroscience 2009 29 26 8586 8594 2-s2.0-67649990015 10.1523/JNEUROSCI.1868-09.2009
80. Filippini N., MacIntosh B. J., Hough M. G., Goodwin G. M., Frisoni G. B., Smith S. M., Matthews P. M., Beckmann C. F., Mackay C. E., Distinct patterns of brain activity in young carriers of the APOE- ε 4 allele. Proceedings of the National Academy of Sciences of the United States of America 2009 106 17 7209 7214 2-s2.0-66349129276 10.1073/pnas.0811879106
81. Beckmann C. F., Mackay C. E., Filippini N., Smith S. M., Group comparison of resting-state FMRI data using multi-subject ICA and dual regression. NeuroImage 2009 47 supplement 1 S39 S41 10.1016/j.neuroimage.2009.04.006
82. Calhoun V. D., Adali T., McGinty V. B., Pekar J. J., Watson T. D., Pearlson G. D., fMRI activation in a visual-perception task: network of areas detected using the general linear model and independent components analysis. NeuroImage 2001 14 5 1080 1088 2-s2.0-0035172708 10.1006/nimg.2001.0921 (Pubitemid 33049849)
83. Wismüller A., Lange O., Auer D., Leinsinger G., Model-free functional MRI analysis for detecting low-frequency functional connectivity in the human brains. 7624 Proceedings of the Society of Photo-Optical Instrumentation Engineers (SPIE) Conference Series 2010 The international society for optics and photonics (SPIE)
84. Bellec P., Rosa-Neto P., Lyttelton O. C., Benali H., Evans A. C., Multi-level bootstrap analysis of stable clusters in resting-state fMRI. NeuroImage 2010 51 3 1126 1139 2-s2.0-77952482885 10.1016/j.neuroimage.2010.02. 082
85. Cordes D., Haughton V., Carew J. D., Arfanakis K., Maravilla K., Hierarchical clustering to measure connectivity in fMRI resting-state data. Magnetic Resonance Imaging 2002 20 4 305 317 2-s2.0-0036563292 10.1016/S0730-725X(02)00503-9
86. Mezer A., Yovel Y., Pasternak O., Gorfine T., Assaf Y., Cluster analysis of resting-state fMRI time series. NeuroImage 2009 45 4 1117 1125 2-s2.0-62049084467 10.1016/j.neuroimage.2008.12.015
87. van den Heuvel M., Mandl R., Pol H. H., Normalized cut group clustering of resting-state fMRI data. PLoS ONE 2008 3 4 2-s2.0-44349149239 10.1371/journal.pone.0002001 e2001 (Pubitemid 352015931)
88. Salvador R., Suckling J., Coleman M. R., Pickard J. D., Menon D., Bullmore E., Neurophysiological architecture of functional magnetic resonance images of human brain. Cerebral Cortex 2005 15 9 1332 2342 2-s2.0-18144431880 10.1093/cercor/bhi016 (Pubitemid 41191541)
89. Cohen A. L., Fair D. A., Dosenbach N. U. F., Miezin F. M., Dierker D., Van Essen D. C., Schlaggar B. L., Petersen S. E., Defining functional areas in individual human brains using resting functional connectivity MRI. NeuroImage 2008 41 1 45 57 2-s2.0-42649084678 10.1016/j.neuroimage.2008.01.066
90. van den Heuvel M. P., Stam C. J., Boersma M., Hulshoff Pol H. E., Small-world and scale-free organization of voxel-based resting-state functional connectivity in the human brain. NeuroImage 2008 43 3 528 539 2-s2.0-54149095921 10.1016/j.neuroimage.2008.08.010
91. Schachtner R., Pöppel G., Lang E. W., Bayesian extensions of non-negative matrix factorization. Proceedings of the 2nd International Workshop on Cognitive Information Processing (CIP '10) June 2010 57 62 2-s2.0-78349255548 10.1109/CIP.2010.5604130
92. Cemgil A. T., Bayesian inference in non-negative matrix factorization models. Computational Intelligence and Neuroscience 2009 2009 17 10.1155/2009/785152 785152
93. Norman K. A., Polyn S. M., Detre G. J., Haxby J. V., Beyond mind-reading: multi-voxel pattern analysis of fMRI data. Trends in Cognitive Sciences 2006 10 9 424 430 2-s2.0-33748178966 10.1016/j.tics.2006.07.005 (Pubitemid 44308461)
94. Haynes J. D., Rees G., Decoding mental states from brain activity in humans. Nature Reviews Neuroscience 2006 7 7 523 534 2-s2.0-33745587777 10.1038/nrn1931 (Pubitemid 43989773)
95. Pereira F., Mitchell T., Botvinick M., Machine learning classifiers and fMRI: a tutorial overview. NeuroImage 2009 45 1 S199 209 2-s2.0-65549168742 10.1016/j.neuroimage.2008.11.007
96. Guyon I., Elisseeff A., An introduction to variable and feature selection. Journal of Machine Learning Research 2003 3 1157 1182
97. Breiman L., Random forests. Machine Learning 2001 45 1 5 32 2-s2.0-0035478854 10.1023/A:1010933404324 (Pubitemid 32933532)
98. Joel S. E., Caffo B. S., van Zijl P. C. M., Pekar J. J., On the relationship between seed-based and ica-based measures of functional connectivity. Magnetic Resonance in Medicine 66 3 644 657 10.1002/mrm.22818
99. Elseoud A. A., Littow H., Remes J., Starck T., Nikkinen J., Nissilä J., Timonen M., Tervonen O., Kiviniemi V., Group-ICA model order highlights patterns of functional brain connectivity. Frontiers in Systems Neuroscience 2011 5 73 2-s2.0-79957603931
100. Li J., Wang Z. J., McKeown M. J., Controlling the false discovery rate in modeling brain functional connectivity. Proceedings of the IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP '08) April 2008 2105 2108 2-s2.0-51449123575 10.1109/ICASSP.2008.4518057
101. Rogers B. P., Gore J. C., Empirical comparison of sources of variation for FMRI connectivity analysis. PLoS ONE 2008 3 11 2-s2.0-56649089592 10.1371/journal.pone.0003708 e3708
102. Varoquaux G., Gramfort A., Poline J. -B., Thirion B., Brain covariance selection: better individual functional connectivity models using population prior. 2010
103. Erla S., Faes L., Tranquillini E., Orrico D., Nollo G., Multivariate autoregressive model with instantaneous effects to improve brain connectivity estimation. Proceedings of the 7th NFSI & ICBEM 2009 Conference 2009
104. Haufe S., Tomioka R., Nolte G., Müller K. R., Kawanabe M., Modeling sparse connectivity between underlying brain sources for EEG/MEG. IEEE Transactions on Biomedical Engineering 2010 57 8 1954 1963 2-s2.0-77954646035 10.1109/TBME.2010.2046325
105. Palva S., Monto S., Palva J. M., Graph properties of synchronized cortical networks during visual working memory maintenance. NeuroImage 2010 49 4 3257 3268 2-s2.0-74149087743 10.1016/j.neuroimage.2009.11.031
106. Deco G., Jirsa V. K., McIntosh A. R., Emerging concepts for the dynamical organization of resting-state activity in the brain. Nature Reviews Neuroscience 2011 12 1 43 56 2-s2.0-78650339790 10.1038/nrn2961
107. Deco G., Corbetta M., The dynamical balance of the brain at rest. Neuroscientist 2011 17 1 107 123 2-s2.0-79952171623 10.1177/1073858409354384
108. Fair D. A., Cohen A. L., Power J. D., Dosenbach N. U. F., Church J. A., Miezin F. M., Schlaggar B. L., Petersen S. E., Functional brain networks develop from a local to distributed organization. PLoS Computational Biology 2009 5 5 2-s2.0-67049119331 10.1371/journal.pcbi.1000381 e1000381
109. Vogel A. C., Power J. D., Petersen S. E., Schlaggar B. L., Development of the brain's functional network architecture. Neuropsychology Review 2010 20 4 362 375 2-s2.0-79951675004 10.1007/s11065-010-9145-7
110. Shannon B. J., Raichle M. E., Snyder A. Z., Fair D. A., Mills K. L., Zhang D., Bache K., Calhoun V. D., Nigg J. T., Nagel B. J., Stevens A. A., Kiehl K. A., Premotor functional connectivity predicts impulsivity in juvenile offenders. Proceedings of the National Academy of Sciences of the United States of America 2011 108 27 11241 11245 2-s2.0-79960567571 10.1073/pnas.1108241108
111. Smyser C. D., Snyder A. Z., Neil J. J., Functional connectivity MRI in infants: exploration of the functional organization of the developing brain. NeuroImage 2011 56 3 1437 1452 2-s2.0-79955485103 10.1016/j.neuroimage.2011.02. 073
112. Friston K. J., Harrison L., Penny W., Dynamic causal modelling. NeuroImage 2003 19 4 1273 1302 2-s2.0-0041924877 10.1016/S1053-8119(03)00202-7 (Pubitemid 37025831)
113. Goebel R., Roebroeck A., Kim D. S., Formisano E., Investigating directed cortical interactions in time-resolved fMRI data using vector autoregressive modeling and Granger causality mapping. Magnetic Resonance Imaging 2003 21 10 1251 1261 2-s2.0-1042301100 10.1016/j.mri.2003.08.026 (Pubitemid 38199731)
114. David O., fMRI connectivity, meaning and empiricism. Comments on: roebroeck et al. The identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. NeuroImage 2009 58 2 306 309 2-s2.0-70449513245 10.1016/j.neuroimage.2009.09.073
115. Roebroeck A., Formisano E., Goebel R., The identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. NeuroImage 2009 58 2 296 302 2-s2.0-70749134130 10.1016/j.neuroimage.2009.10.077
116. Roebroeck A., Formisano E., Goebel R., Reply to Friston and David. After comments on: the identification of interacting networks in the brain using fMRI: model selection, causality and deconvolution. NeuroImage 2009 58 2 310 311 2-s2.0-70749134130 10.1016/j.neuroimage.2009.10.077
117. Zhou Z., Ding M., Chen Y., Wright P., Lu Z., Liu Y., Detecting directional influence in fMRI connectivity analysis using PCA based Granger causality. Brain Research 2009 1289 22 29 2-s2.0-68749102230 10.1016/j.brainres.2009.06.096
118. Rajapakse J. C., Wang Y., Zheng X., Zhou J., Probabilistic framework for brain connectivity from functional MR images. IEEE Transactions on Medical Imaging 2008 27 6 825 833 2-s2.0-44449087381 10.1109/TMI.2008.915672 (Pubitemid 351760854)
119. Rajapakse J. C., Zhou J., Learning effective brain connectivity with dynamic Bayesian networks. NeuroImage 2007 37 3 749 760 2-s2.0-34547839743 10.1016/j.neuroimage.2007.06.003 (Pubitemid 47248326)
120. Roebroeck A., Seth A. K., Valdes-Sosa P., Causal time series analysis of functional magnetic resonance imaging data. Journal of Machine Learning Research 2011 12 65 94
121. Battaglia D., Witt A., Wolf F., Geisel T., Dynamic effective connectivity of inter-areal brain circuits. PLoS Computational Biology 2012 8 3 e1002438
122. Smith S. M., Miller K. L., Salimi-Khorshidi G., Webster M., Beckmann C. F., Nichols T. E., Ramsey J. D., Woolrich M. W., Network modelling methods for FMRI. NeuroImage 2011 54 2 875 891 2-s2.0-78649717035 10.1016/j.neuroimage.2010. 08.063
123. Sporns O., The human connectome: a complex network. Annals of the New York Academy of Sciences 2011 1224 1 109 125 2-s2.0-79954516559 10.1111/j.1749-6632.2010.05888.x
124. Diestel R., Chapter Graph Theory 2005 New York, NY, USA Springer
125. Bullmore E., Barnes A., Bassett D. S., Fornito A., Kitzbichler M., Meunier D., Suckling J., Generic aspects of complexity in brain imaging data and other biological systems. NeuroImage 2009 47 3 1125 1134 2-s2.0-67651031684 10.1016/j.neuroimage.2009.05.032
126. Sporns O., Honey C. J., Kötter R., Identification and classification of hubs in brain networks. PLoS ONE 2007 2 10 2-s2.0-38349140387 10.1371/journal.pone.0001049 e1049 (Pubitemid 351560119)
127. Albert R., Jeong H., Barabási A. L., Error and attack tolerance of complex networks. Nature 2000 406 6794 378 382 2-s2.0-0034721164 10.1038/35019019 (Pubitemid 30625551)
128. Stam C. J., De Haan W., Daffertshofer A., Jones B. F., Manshanden I., Van Cappellen Van Walsum A. M., Montez T., Verbunt J. P. A., De Munck J. C., Van Dijk B. W., Berendse H. W., Scheltens P., Graph theoretical analysis of magnetoencephalographic functional connectivity in Alzheimer's disease. Brain 2009 132 1 213 224 2-s2.0-58949094701 10.1093/brain/awn262
129. Honey C. J., Sporns O., Dynamical consequences of lesions in cortical networks. Human Brain Mapping 2008 29 7 802 809 2-s2.0-44949108212 10.1002/hbm.20579 (Pubitemid 351813081)
130. Watts D. J., Strogatz S. H., Collective dynamics of 'small-world9 networks. Nature 1998 393 6684 440 442 2-s2.0-0032482432 (Pubitemid 128728263)
131. Newman M. E. J., Modularity and community structure in networks. Proceedings of the National Academy of Sciences of the United States of America 2006 103 23 8577 8582 2-s2.0-33745012299 10.1073/pnas.0601602103 (Pubitemid 43878062)
132. Ravasz E., Barabasi L., Hierarchical organization in complex networks. Physical Review E 2003 67 026112
133. Barabási A. L., Albert R., Emergence of scaling in random networks. Science 1999 286 5439 509 512 2-s2.0-0038483826 10.1126/science.286. 5439.509
134. Latora V., Marchiori M., Efficient behavior of small-world networks. Physical Review Letters 2001 87 19 198701/1 198701/4 2-s2.0-35348957264 198701 (Pubitemid 33067899)
135. Bassett D. S., Bullmore E., Small-world brain networks. Neuroscientist 2006 12 6 512 523 2-s2.0-33750466904 10.1177/1073858406293182 (Pubitemid 44657966)
136. Sporns O., Zwi J. D., The small world of the cerebral cortex. Neuroinformatics 2004 2 2 145 162 2-s2.0-4444229670 10.1385/NI:2:2:145 (Pubitemid 41214095)
137. Ioannides A. A., Dynamic functional connectivity. Current Opinion in Neurobiology 2007 17 2 161 170 10.1016/j.conb.2007.03.008 (Pubitemid 46584800)
138. Wig G. S., Schlaggar B. L., Petersen S. E., Concepts and principles in the analysis of brain networks. Annals of the New York Academy of Sciences 2011 1224 1 126 146 2-s2.0-79954455075 10.1111/j.1749-6632.2010.05947.x
139. Stam C. J., Characterization of anatomical and functional connectivity in the brain: a complex networks perspective. International Journal of Psychophysiology 2010 77 3 186 194 2-s2.0-78951493634
140. Guye M., Bartolomei F., Ranjeva J. P., Imaging structural and functional
141. Medkour T., Walden A. T., Burgess A., Graphical modelling for brain connectivity via partial coherence. Journal of Neuroscience Methods 2009 180 2 374 383 2-s2.0-65649094858 10.1016/j.jneumeth.2009.04.003
142. He Y., Evans A., Graph theoretical modeling of brain connectivity. Current Opinion in Neurology 2010 23 4 341 350 2-s2.0-77954623552 10.1097/WCO.0b013e32833aa567
143. Miao X., Wu X., Li R., Chen K., Yao L., Altered connectivity pattern of hubs in default-mode network with alzheimer's disease: an granger causality modeling approach. PLoS One 2011 6 10 10.1371/journal.pone.0025546 e25546
144. Sporns O., Tononi G., Edelman G. M., Theoretical neuroanatomy: relating anatomical and functional connectivity in graphs and cortical connection matrices. Cerebral Cortex 2000 10 2 127 141 2-s2.0-0033953083 (Pubitemid 30078735)
145. Hagmann P., Cammoun L., Gigandet X., Meuli R., Honey C. J., Wedeen V. J., Sporns O., Mapping the structural core of human cerebral cortex. PLoS Biology 2008 6 7 e159 2-s2.0-79956364269
146. He Y., Chen Z. J., Evans A. C., Small-world anatomical networks in the human brain revealed by cortical thickness from MRI. Cerebral Cortex 2007 17 10 2407 2419 2-s2.0-34548837501 10.1093/cercor/bhl149 (Pubitemid 47517476)
147. Buckner R. L., Sepulcre J., Talukdar T., Krienen F. M., Liu H., Hedden T., Andrews-Hanna J. R., Sperling R. A., Johnson K. A., Cortical hubs revealed by intrinsic functional connectivity: mapping, assessment of stability, and relation to Alzheimer's disease. Journal of Neuroscience 2009 29 6 1860 1873 2-s2.0-60849136325 10.1523/JNEUROSCI.5062-08.2009
148. Eguiluz V. M., Chialvo D. R., Cecchi G. A., Baliki M., Apkariana V., Scale-free brain functional networks. Physical Review Letters 2005 94 10.1103/PhysRevLett.94.018102 018102 (Pubitemid 40620264)
149. Stam C. J., Reijneveld J. C., Graph theoretical analysis of complex networks in the brain. Nonlinear Biomedical Physics 2007 1 3 2-s2.0-35148879706 10.1186/1753-4631-1-3
150. Achard S., Salvador R., Whitcher B., Suckling J., Bullmore E., A resilient, low-frequency, small-world human brain functional network with highly connected association cortical hubs. Journal of Neuroscience 2006 26 1 63 72 2-s2.0-30744439313 10.1523/JNEUROSCI.3874-05.2006 (Pubitemid 43090914)
151. Achard S., Bullmore E., Efficiency and cost of economical brain functional networks. PLoS Computational Biology 2007 3 2 0174 0183 2-s2.0-33847283332 10.1371/journal.pcbi.0030017
152. He Y., Wang J., Wang L., Chen Z. J., Yan C., Yang H., Tang H., Zhu C., Gong Q., Zang Y., Evans A. C., Uncovering intrinsic modular organization of spontaneous brain activity in humans. PLoS ONE 2009 4 4 2-s2.0-65349088487 10.1371/journal.pone.0005226 e5226
153. Meunier D., Achard S., Morcom A., Bullmore E., Age-related changes in modular organization of human brain functional networks. NeuroImage 2009 44 3 715 723 2-s2.0-57649177558 10.1016/j.neuroimage.2008.09.062
154. Simpsona S. L., Moussab M. N., Laurientic P. J., An exponential random graph modeling approach to creating group-based representative whole-brain connectivity networks. NeuroImage 2012 60 2 1117 1126
155. Deuker L., Bullmore E. T., Smith M., Christensen S., Nathan P. J., Rockstroh B., Bassett D. S., Reproducibility of graph metrics of human brain functional networks. NeuroImage 2009 47 4 1460 1468 2-s2.0-67651159289 10.1016/j.neuroimage.2009.05.035
156. Telesford Q. K., Morgan A. R., Hayasaka S., Simpson S. L., Barret W., Kraft R. A., Mozolic J. L., Laurienti P. J., Reproducibility of graph metrics in fMRI networks. Frontiers in Neuroinformatics 2010 4 117
157. Wang J. H., Zuo X. N., Gohel S., Milham M. P., Biswal B. B., He Y., Graph theoretical analysis of functional brain networks: test-retest evaluation on short- and long-term resting-state functional MRI data. PLoS ONE 2011 6 7 2-s2.0-79960466747 10.1371/journal.pone.0021976 e21976
158. Braun U., Plichta M. M., Esslinger C., Sauer C., Haddad L., Grimm O., Mier D., Mohnke S., Heinz A., Erk S., Walter H., Seiferth N., Kirsch P., Meyer-Lindenberg A., Test-retest reliability of resting-state connectivity network characteristics using fmri and graph theoretical measures. Neuroimage 2012 59 2 1404 1412
159. Wang J., Wang L., Zang Y., Yang H., Tang H., Gong Q., Chen Z., Zhu C., He Y., Parcellation-dependent small-world brain functional networks: a resting-state fmri study. Human Brain Mapping 2009 30 5 1511 1523 2-s2.0-66149131099 10.1002/hbm.20623
160. Wang L., Zhu C., He Y., Zang Y., Cao Q., Zhang H., Zhong Q., Wang Y., Altered small-world brain functional networks in children with attention-deficit/hyperactivity disorder. Human Brain Mapping 2009 30 2 638 649 2-s2.0-59949084588 10.1002/hbm.20530
161. Fornito A., Zalesky A., Bullmore E. T., Network scaling effects in graph analytic studies of human resting-state fMRI data. Frontiers in Systems Neuroscience 2010 4 22 2-s2.0-78149420706 10.3389/fnsys.2010.00022
162. Hayasaka S., Laurienti P. J., Comparison of characteristics between region-and voxel-based network analyses in resting-state fMRI data. NeuroImage 2010 50 2 499 508 2-s2.0-77952317463 10.1016/j.neuroimage.2009.12.051
163. Zalesky A., Fornito A., Harding I. H., Cocchi L., Yücel M., Pantelis C., Bullmore E. T., Whole-brain anatomical networks: does the choice of nodes matter? NeuroImage 2010 50 3 970 983 2-s2.0-77349095673 10.1016/j.neuroimage. 2009.12.027
164. Rubinov M., Sporns O., Weight-conserving characterization of complex functional brain networks. NeuroImage 2011 56 4 2068 2079 2-s2.0-79957450857 10.1016/j.neuroimage.2011.03.069
165. Zalesky A., Fornito A., Bullmore E. T., Network-based statistic: identifying differences in brain networks. NeuroImage 2010 53 4 1197 1207 2-s2.0-77957324650 10.1016/j.neuroimage.2010.06.041
166. Damoiseaux J. S., Greicius M. D., Greater than the sum of its parts: a review of studies combining structural connectivity and resting-state functional connectivity. Brain Structure and Function 2009 1 9 2-s2.0-67649271264 10.1007/s00429-009-0208-6