Presentation in the Imaging Genetics Educational Course during the 19th Annual Meeting of the Organization for Human Brain Mapping — Seattle, WA, USA, 16-20 June 2013.

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Being this presentation for an educational course, most slides contain one or two references to papers that can be starting points for more information on each topic. The references cited are:

• Bartlett JW, Frost C. Reliability, repeatability and reproducibility: analysis of measurement errors in continuous variables. Ultrasound Obstet Gynecol. 2008 Apr;31(4):466-75.
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• Bearden CE, Winkler AM, Karlsgodt KH. Concepts and criteria for cognitive phenotypes and endophenotypes. Book chapter in press. Editors: Jagaroo V and Santangelo SL. [this ref. will be updated once the book is published]
• Beaulieu C. The basis of anisotropic water diffusion in the nervous system – a technical review. NMR Biomed. 2002 Nov-Dec;15(7-8):435-55.
• Bilder RM, Sabb FW, Cannon TD, London ED, Jentsch JD, Parker DS, Poldrack RA, Evans C, Freimer NB. Phenomics: the systematic study of phenotypes on a genome-wide scale. Neuroscience. 2009 Nov 24;164(1):30-42.
• Chen CH, Gutierrez ED, Thompson W, Panizzon MS, Jernigan TL, Eyler LT, Fennema-Notestine C, Jak AJ, Neale MC, Franz CE, Lyons MJ, Grant MD, Fischl B, Seidman LJ, Tsuang MT, Kremen WS, Dale AM. Hierarchical genetic organization of human cortical surface area. Science. 2012 Mar 30;335(6076):1634-6.
• Congdon E, Poldrack RA, Freimer NB. Neurocognitive phenotypes and genetic dissection of disorders of brain and behavior. Neuron. 2010 Oct 21;68(2):218-30.
• Eyler LT, Prom-Wormley E, Panizzon MS, Kaup AR, Fennema-Notestine C, Neale MC, Jernigan TL, Fischl B, Franz CE, Lyons MJ, Grant M, Stevens A, Pacheco J, Perry ME, Schmitt JE, Seidman LJ, Thermenos HW, Tsuang MT, Chen CH, Thompson WK, Jak A, Dale AM, Kremen WS. Genetic and environmental contributions to regional cortical surface area in humans: a magnetic resonance imaging twin study. Cereb Cortex. 2011 Oct;21(10):2313-21.
• Eyler LT, Prom-Wormley E, Fennema-Notestine C, Panizzon MS, Neale MC, Jernigan TL, Fischl B, Franz CE, Lyons MJ, Stevens A, Pacheco J, Perry ME, Schmitt JE, Spitzer NC, Seidman LJ, Thermenos HW, Tsuang MT, Dale AM, Kremen WS. Genetic patterns of correlation among subcortical volumes in humans: results from a magnetic resonance imaging twin study. Hum Brain Mapp. 2011 Apr;32(4):641-53.
• Freimer N, Sabatti C. The human phenome project. Nat Genet. 2003 May;34(1):15-21.
• Gottesman II, Gould TD. The endophenotype concept in psychiatry: etymology and strategic intentions. Am J Psychiatry. 2003 Apr;160(4):636-45.
• Glahn DC, Curran JE, Winkler AM, Carless MA, Kent JW Jr, Charlesworth JC, Johnson MP, Göring HH, Cole SA, Dyer TD, Moses EK, Olvera RL, Kochunov P, Duggirala R, Fox PT, Almasy L, Blangero J. High dimensional endophenotype ranking in the search for major depression risk genes. Biol Psychiatry. 2012 Jan 1;71(1):6-14.
• Glasser MF, Van Essen DC. Mapping human cortical areas in vivo based on myelin content as revealed by T1- and T2-weighted MRI. J Neurosci. 2011 Aug 10;31(32):11597-616.
• Haacke EM, Mittal S, Wu Z, Neelavalli J, Cheng YC. Susceptibility-weighted imaging: technical aspects and clinical applications, part 1. AJNR Am J Neuroradiol. 2009 Jan;30(1):19-30.
• Henkelman RM, Stanisz GJ, Graham SJ. Magnetization transfer in MRI: a review. NMR Biomed. 2001 Apr;14(2):57-64.
• Jbabdi S, Johansen-Berg H. Tractography: where do we go from here? Brain Connect. 2011;1(3):169-83.
• Kremen WS, Prom-Wormley E, Panizzon MS, Eyler LT, Fischl B, Neale MC, Franz CE, Lyons MJ, Pacheco J, Perry ME, Stevens A, Schmitt JE, Grant MD, Seidman LJ, Thermenos HW, Tsuang MT, Eisen SA, Dale AM, Fennema-Notestine C. Genetic and environmental influences on the size of specific brain regions in midlife: the VETSA MRI study. Neuroimage. 2010 Jan 15;49(2):1213-23.
• Kochunov P, Glahn DC, Nichols TE, Winkler AM, Hong EL, Holcomb HH, Stein JL, Thompson PM, Curran JE, Carless MA, Olvera RL, Johnson MP, Cole SA, Kochunov V, Kent J, Blangero J. Genetic analysis of cortical thickness and fractional anisotropy of water diffusion in the brain. Front Neurosci. 2011;5:120.
• Mittal S, Wu Z, Neelavalli J, Haacke EM. Susceptibility-weighted imaging: technical aspects and clinical applications, part 2. AJNR Am J Neuroradiol. 2009 Feb;30(2):232-52.
• Panizzon MS, Fennema-Notestine C, Kubarych TS, Chen CH, Eyler LT, Fischl B, Franz CE, Grant MD, Hamza S, Jak A, Jernigan TL, Lyons MJ, Neale MC, Prom-Wormley EC, Seidman L, Tsuang MT, Wu H, Xian H, Dale AM, Kremen WS. Genetic and environmental influences of white and gray matter signal contrast: a new phenotype for imaging genetics? Neuroimage. 2012 Apr 15;60(3):1686-95.
• Patenaude B, Smith SM, Kennedy DN, Jenkinson M. A Bayesian model of shape and appearance for subcortical brain segmentation. Neuroimage. 2011 Jun 1;56(3):907-22.
• Pievani M, Galluzzi S, Thompson PM, Rasser PE, Bonetti M, Frisoni GB. APOE4 is associated with greater atrophy of the hippocampal formation in Alzheimer’s disease. Neuroimage. 2011 Apr 1;55(3):909-19.
• Rimol LM, Panizzon MS, Fennema-Notestine C, Eyler LT, Fischl B, Franz CE, Hagler DJ, Lyons MJ, Neale MC, Pacheco J, Perry ME, Schmitt JE, Grant MD, Seidman LJ, Thermenos HW, Tsuang MT, Eisen SA, Kremen WS, Dale AM. Cortical thickness is influenced by regionally specific genetic factors. Biol Psychiatry. 2010 Mar 1;67(5):493-9.
• Rubinov M, Sporns O. Complex network measures of brain connectivity: uses and interpretations. Neuroimage. 2010 Sep;52(3):1059-69.
• Schulze TG, McMahon FJ. Defining the phenotype in human genetic studies: forward genetics and reverse phenotyping. Hum Hered. 2004;58(3-4):131-8.
• Schaer M, Cuadra MB, Tamarit L, Lazeyras F, Eliez S, Thiran JP. A surface-based approach to quantify local cortical gyrification. IEEE Trans Med Imaging. 2008 Feb;27(2):161-70.
• Sereno MI, Lutti A, Weiskopf N, Dick F. Mapping the Human Cortical Surface by Combining Quantitative T1 with Retinotopy. Cereb Cortex. 2012 Jul 23. [Epub ahead of print]
• Shi Y, Short SJ, Knickmeyer RC, Wang J, Coe CL, Niethammer M, Gilmore JH, Zhu H, Styner MA. Diffusion tensor imaging-based characterization of brain neurodevelopment in primates. Cereb Cortex. 2013 Jan;23(1):36-48.
• Smith SM, Fox PT, Miller KL, Glahn DC, Fox PM, Mackay CE, Filippini N, Watkins KE, Toro R, Laird AR, Beckmann CF. Correspondence of the brain’s functional architecture during activation and rest. Proc Natl Acad Sci U S A. 2009 Aug 4;106(31):13040-5.
• Styner M, Oguz I, Xu S, Brechbühler C, Pantazis D, Levitt JJ, Shenton ME, Gerig G. Framework for the statistical shape analysis of brain structures using SPHARM-PDM. Insight J. 2006;(1071):242-250.
• Thompson PM, Schwartz C, Lin RT, Khan AA, Toga AW. Three-dimensional statistical analysis of sulcal variability in the human brain. J Neurosci. 1996 Jul 1;16(13):4261-74.
• Toro R, Perron M, Pike B, Richer L, Veillette S, Pausova Z, Paus T. Brain size and folding of the human cerebral cortex. Cereb Cortex. 2008 Oct;18(10):2352-7.
• Turnpenny PD, Ellard S. Emery’s Elements of Medical Genetics. Churchill Livingstone, 14th ed, 2011.
• Wager TD, Atlas LY, Lindquist MA, Roy M, Woo CW, Kross E. An fMRI-based neurologic signature of physical pain. N Engl J Med. 2013 Apr 11;368(15):1388-97.
• Westlye LT, Walhovd KB, Dale AM, Espeseth T, Reinvang I, Raz N, Agartz I, Greve DN, Fischl B, Fjell AM. Increased sensitivity to effects of normal aging and Alzheimer’s disease on cortical thickness by adjustment for local variability in gray/white contrast: a multi-sample MRI study. Neuroimage. 2009 Oct 1;47(4):1545-57.
• Winawer MR. Phenotype definition in epilepsy. Epilepsy Behav. 2006 May;8(3):462-76.
• Winkler AM, Kochunov P, Blangero J, Almasy L, Zilles K, Fox PT, Duggirala R, Glahn DC. Cortical thickness or grey matter volume? The importance of selecting the phenotype for imaging genetics studies. Neuroimage. 2010 Nov 15;53(3):1135-46.
• Winkler AM, Sabuncu MR, Yeo BT, Fischl B, Greve DN, Kochunov P, Nichols TE, Blangero J, Glahn DC. Measuring and comparing brain cortical surface area and other areal quantities. Neuroimage. 2012 Jul 16;61(4):1428-43.
• Wojczynski MK, Tiwari HK. Definition of phenotype. Adv Genet. 2008;60:75-105.
• Zalesky A, Fornito A, Bullmore E. On the use of correlation as a measure of network connectivity. Neuroimage. 2012 May 1;60(4):2096-106.
• Zilles K, Armstrong E, Schleicher A, Kretschmann HJ. The human pattern of gyrification in the cerebral cortex. Anat Embryol (Berl). 1988;179(2):173-9.