Abstract
The IMAGEN study—a very large European Research Project—seeks to identify and characterize biological and environmental factors that influence teenagers mental health. To this aim, the consortium plans to collect data for more than 2000 subjects at 8 neuroimaging centres. These data comprise neuroimaging data, behavioral tests (for up to 5 hours of testing), and also white blood samples which are collected and processed to obtain 650 k single nucleotide polymorphisms (SNP) per subject. Data for more than 1000 subjects have already been collected. We describe the statistical aspects of these data and the challenges, such as the multiple comparison problem, created by such a large imaging genetics study (i.e., 650 k for the SNP, 50 k data per neuroimage).We also suggest possible strategies, and present some first investigations using uni or multi-variate methods in association with re-sampling techniques. Specifically, because the number of variables is very high, we first reduce the data size and then use multivariate (CCA, PLS) techniques in association with re-sampling techniques.
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References
ASHBURNER J., and FRISTON K.J. (2001): Why voxel-based morphometry should be used. NeuroImage, 14, 1238-1243.
ASSAF Y, and PASTERNAK O.(2008): Diffusion tensor imaging (DTI)-based white matter mapping in brain research: a review. J Mol Neurosci, 34, 51–61.
DUDOIT, S and VAN DER LAAN, M. J.(2008): Multiple Testing Procedures with Applications to Genomics, Springer, New York.
CORDELL H.J., and CLAYTON D.G.(2005): Genetic association studies.Lancet, 366, 1121–1131.
HARDOON D.R., ETTINGER U., MOURÃO-MIRANDA J., ANTONOVA E., et al., (2009):Correlation-based multivariate analysis of genetic influence on brain volume. Neuroscience letters, 450, 281–286.
IOANNIDIS J.P., THOMAS G., and DALY MJ (2009): Validating, augmenting and refining genome-wide association signals. Nature Reviews Genetics, 10, 318–329.
LÊCAO K.A., ROSSOUW D., ROBERT-GRANIÉ C., and BESSE P (2008): A sparse PLS for variable selection when integrating omics data. Statistical Applications in Genetics and Molecular Biology, 7, 35.
MÉRIAUX S., ROCHE A., DEHAENE-LAMBERTZ G., THIRION B., and POLINE J.B.(2006): Combined permutation test and mixed-effect model for group average analysis in fMRI. Hum Brain Mapp, 27, 402-410.
PARKHOMENKO E., TRITCHLER D., and BEYENE J.(2007): Genome-wide sparse canonical correlation of gene expression with genotypes. BMC Proceedings, 1, S119.
POLINE J.B., ROCHE A., CIUCIU P., and THIRION B.(2008): Intra- and inter-subject aspects of fMRI data analysis. In Paragios N., Duncan J., Ayache N. (Eds.) Handbook of Biomedical Imaging.
Rogers J., Kochunov P., Zilles K., Shelledy W., et al., (in press). On the genetic architecture of cortical folding and brain volume in primates. Neuroimage.
RORDEN C., BONILHA L., and NICHOLS T.E.(2007). Rank-order versus mean based statistics for neuroimaging. NeuroImage, 35, 1531–1537.
SMITH S.M., JENKINSON M., JOHANSEN-BERG H., RUECKERT D., et al., (2006): Tract-based spatial statistics: Voxelwise analysis of multi-subject diffusion data. NeuroImage, 31, 1487–1505.
TENENHAUS A., and TENENHAUS M. (in revision). Regularized generalized canonical correlation analysis, Psychometrika.
THIRION B., PINEL P., and POLINE, J.B.(2005): Finding landmarks in the functional brain: detection and use for group characterization. Med Image Comput Comput Assist Interv Int Conf, 8, 476–483.
THIRION B., PINEL P., TUCHOLKA A., ROCHE A., CIUCIU P., MANGIN J.-F., and POLINE J.-B.(2007): Structural analysis of fMRI data revisited: Improving the sensitivity and reliability of fMRI group studies. IEEE Transactions on Medical Imaging, 26, 1256–1269.
WORSLEY K.J.(2003): Detecting activation in fMRI data. Stat Methods Med Res, 12, 401–418.
Acknowledgements
We are very grateful to H. Abdi for his help in editing the manuscript. Support was provided by the IMAGEN project, which receives research funding from the European Community’s Sixth Framework Programme (LSHM-CT-2007-037286). This manuscript reflects only the author’s views and the Community is not liable for any use that may be made of the information contained therein.
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Poline, JB., Lalanne, C., Tenenhaus, A., Duchesnay, E., Thirion, B., Frouin, V. (2010). Imaging Genetics: Bio-Informatics and Bio-Statistics Challenges. In: Lechevallier, Y., Saporta, G. (eds) Proceedings of COMPSTAT'2010. Physica-Verlag HD. https://doi.org/10.1007/978-3-7908-2604-3_9
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DOI: https://doi.org/10.1007/978-3-7908-2604-3_9
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