39. Peterson CC, Johnson CE, Ramirez LY, Huestis S, Pai AL, et al. (2008) A meta- analysis of the neuropsychological sequelae of chemotherapy-only treatment for pediatric acute lymphoblastic leukemia. Pediatr Blood Cancer 51: 99–104. 40. Campbell LK, Scaduto M, Sharp W, Dufton L, Van Slyke D, et al. (2007) A meta-analysis of the neurocognitive sequelae of treatment for childhood acute lymphocytic leukemia. Pediatr Blood Cancer 49: 65–73. 41. Buizer AI, de Sonneville LM, Veerman AJ (2009) Effects of chemotherapy on neurocognitive function in children with acute lymphoblastic leukemia: a critical review of the literature. Pediatr Blood Cancer 52: 447–454. 42. Temming P, Jenney ME (2010) The neurodevelopmental sequelae of childhood leukaemia and its treatment. Arch Dis Child 95: 936–940. 43. Leh SE, Petrides M, Strafella AP (2010) The neural circuitry of executive functions in healthy subjects and Parkinson’s disease. Neuropsychopharmacol- ogy 35: 70–85. 44. Lerch JP, Worsley K, Shaw WP, Greenstein DK, Lenroot RK, et al. (2006) Mapping anatomical correlations across cerebral cortex (MACACC) using cortical thickness from MRI. Neuroimage 31: 993–1003. 45. Bernhardt BC, Worsley KJ, Besson P, Concha L, Lerch JP, et al. (2008) Mapping limbic network organization in temporal lobe epilepsy using morphometric correlations: insights on the relation between mesiotemporal connectivity and cortical atrophy. Neuroimage 42: 515–524. 46. Sanabria-Diaz G, Melie-Garcia L, Iturria-Medina Y, Aleman-Gomez Y, Hernandez-Gonzalez G, et al. (2010) Surface area and cortical thickness descriptors reveal different attributes of the structural human brain networks. Neuroimage 50: 1497–1510. 47. He Y, Evans A (2010) Graph theoretical modeling of brain connectivity. Current Opinion in Neurology 23: 341–350. 48. Zalesky A, Fornito A, Bullmore ET (2010) Network-based statistic: identifying differences in brain networks. NeuroImage 53: 1197–1207. 49. 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. 50. Yao Z, Zhang Y, Lin L, Zhou Y, Xu C (2010) Abnormal Cortical Networks in Mild Cognitive Impairment and Alzheimer’s Disease. PLoS Computational Biology 6(11): e1001006. 51. Maslov S, Sneppen K (2002) Specificity and stability in topology of protein networks. Science 296: 910–913. 52. Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, et al. (2002) Network motifs: simple building blocks of complex networks. Science 298: 824–827. 53. Zalesky A, Fornito A, Bullmore E (2012) On the use of correlation as a measure of network connectivity. Neuroimage 60: 2096–2106. 54. Ginestet CE, Nichols TE, Bullmore ET, Simmons A (2011) Brain network analysis: separating cost from topology using cost-integration. PLoS One 6: e21570. 55. 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. 56. Bullmore E, Sporns O (2009) Complex brain networks: graph theoretical analysis of structural and functional systems. Nat Rev Neurosci 10: 186–198. 57. Albert R, Barbasi AL (2002) Statistical mechanics of complex networks. Reviews of Modern Physics 74: 47–51. 58. Crucitti P, Latora V, Marchiori M (2003) Efficiency of scale-free networks: error and attack tolerance. Physica A 320: 622–642. 59. Meunier D, Achard S, Morcom A, Bullmore E (2009) Age-related changes in modular organization of human brain functional networks. NeuroImage 44: 715–723. 60. Newman ME (2006) Modularity and community structure in networks. Proc Natl Acad Sci U S A 103: 8577–8582. 61. Blondel VD, Guillaume JL, Lambiotte R, Lefebvre E (2008) Fast unfolding of communities in large networks. Jorurnal of Statistical Mechanics P10008. 62. Albert R, Jeong H, Barabasi AL (2000) Error and attack tolerance of complex networks. Nature 406: 378–382. 63. Iturria-Medina Y, Sotero RC, Canales-Rodriguez EJ, Aleman-Gomez Y, Melie- Garcia L (2008) Studying the human brain anatomical network via diffusion- weighted MRI and Graph Theory. Neuroimage 40: 1064–1076. 64. Strogatz SH (2001) Exploring complex networks. Nature 410: 268–276. 65. Greicius MD, Supekar K, Menon V, Dougherty RF (2009) Resting-state functional connectivity reflects structural connectivity in the default mode network. Cereb Cortex 19: 72–78. 66. Honey CJ, Sporns O, Cammoun L, Gigandet X, Thiran JP, et al. (2009) Predicting human resting-state functional connectivity from structural connec- tivity. Proc Natl Acad Sci U S A 106: 2035–2040. 67. Biswal BB, Van Kylen J, Hyde JS (1997) Simultaneous assessment of flow and BOLD signals in resting-state functional connectivity maps. NMR Biomed 10: 165–170. GAT: Graph Analysis Toolbox for Brain Networks 68. Salvador R, Suckling J, Coleman MR, Pickard JD, Menon D, et al. (2005) Neurophysiological architecture of functional magnetic resonance images of human brain. Cereb Cortex 15: 1332–1342. 69. Eguiluz VM, Chialvo DR, Cecchi GA, Baliki M, Apkarian AV (2005) Scale-free brain functional networks. Phys Rev Lett 94: 018102. 70. Lynall ME, Bassett DS, Kerwin R, McKenna PJ, Kitzbichler M, et al. (2010) Functional connectivity and brain networks in schizophrenia. J Neurosci 30: 9477–9487. 71. Liu Y, Liang M, Zhou Y, He Y, Hao Y, et al. (2008) Disrupted small-world networks in schizophrenia. Brain 131: 945–961. 72. Nakamura T, Hillary FG, Biswal BB (2009) Resting network plasticity following brain injury. PLoS One 4: e8220. 73. Liao W, Zhang Z, Pan Z, Mantini D, Ding J, et al. (2010) Altered functional connectivity and small-world in mesial temporal lobe epilepsy. PLoS One 5: e8525. 74. Wang L, Zhu C, He Y, Zang Y, Cao Q, et al. (2009) Altered small-world brain functional networks in children with attention-deficit/hyperactivity disorder. Hum Brain Mapp 30: 638–649. 75. Wang L, Li Y, Metzak P, He Y, Woodward TS (2010) Age-related changes in topological patterns of large-scale brain functional networks during memory encoding and recognition. Neuroimage 50: 862–872. 76. Wang L, Metzak PD, Honer WG, Woodward TS (2010) Impaired efficiency of functional networks underlying episodic memory-for-context in schizophrenia. J Neurosci 30: 13171–13179. 77. Friston K, Ashburner J, Kiebel S, Nichols T, Penny W (2007) Statistical parametric mapping: The analysis of functional brain images. San Francisco: Elsevier Academic. 78. Good CD, Johnsrude IS, Ashburner J, Henson RN, Friston KJ, et al. (2001) A voxel-based morphometric study of ageing in 465 normal adult human brains. Neuroimage 14: 21–36. 79. Wilke M, Holland SK, Altaye M, Gaser C (2008) Template-O-Matic: a toolbox for creating customized pediatric templates. Neuroimage 41: 903–913. 80. Smith SM, Miller KL, Salimi-Khorshidi G, Webster M, Beckmann CF, et al. (2011) Network modelling methods for FMRI. Neuroimage 54: 875–891. 81. Kaiser M, Hilgetag CC (2006) Nonoptimal component placement, but short processing paths, due to long-distance projections in neural systems. PLoS Computational Biology 2: e95. 82. Sailer M, Fischl B, Salat D, Tempelmann C, Schoenfeld MA, et al. (2003) Focal thinning of the cerebral cortex in multiple sclerosis. Brain 126: 1734–1744. 83. Sepulcre J, Goni J, Masdeu JC, Bejarano B, Velez N, et al. (2009) Contribution of white matter lesions to gray matter atrophy in multiple sclerosis. Arch Neurol 66: 173–179. 84. Dietrich J, Han R, Yang Y, Mayer-Proschel M, Noble M (2006) CNS progenitor cells and oligodendrocytes are targets of chemotherapeutic agents in vitro and in vivo. J Biol 5: 22. 85. Seigers R, Schagen SB, Beerling W, Boogerd W, van Tellingen O, et al. (2008) Long-lasting suppression of hippocampal cell proliferation and impaired cognitive performance by methotrexate in the rat. Behav Brain Res 186: 168– 175. 86. Winocur G, Vardy J, Binns MA, Kerr L, Tannock I (2006) The effects of the anti-cancer drugs, methotrexate and 5-fluorouracil, on cognitive function in mice. Pharmacology, biochemistry, and behavior 85: 66–75. 87. Han R, Yang YM, Dietrich J, Luebke A (2008) Systemic 5-fluorouracil treatment causes a syndrome of delayed myelin destruction in the central nervous system. Journal of Biology 7. 88. Seigers R, Schagen SB, Coppens CM, van der Most PJ, van Dam FS, et al. (2009) Methotrexate decreases hippocampal cell proliferation and induces memory deficits in rats. Behav Brain Res 201: 279–284. 89. Aukema EJ, Caan MW, Oudhuis N, Majoie CB, Vos FM, et al. (2009) White matter fractional anisotropy correlates with speed of processing and motor speed in young childhood cancer survivors. Int J Radiat Oncol Biol Phys 74: 837–843. 90. Sporns O (2011) The human connectome: a complex network. Annals of NewYork Academy of Sciences 1224: 109–125. 91. Carey ME, Haut MW, Reminger SL, Hutter JJ, Theilmann R, et al. (2008) Reduced frontal white matter volume in long-term childhood leukemia survivors: a voxel-based morphometry study. AJNR Am J Neuroradiol 29: 792–797. 92. Paakko E, Harila-Saari A, Vanionpaa L, Himanen S, Pyhtinen J, et al. (2000) White matter changes on MRI during treatment in children with acute lymphoblastic leukemia: correlation with neuropsychological findings. Med Pediatr Oncol 35: 456–461. 93. Rubinov M, Sporns O (2011) Weight-conserving characterization of complex functional brain networks. Neuroimage 56: 2068–2079. PLoS ONE | www.plosone.org 15 July 2012 | Volume 7 | Issue 7 | e40709