Eddy Current and Motion Correction

Mohammadi S, Moller HE, Kugel H, Muller DK, Deppe M (2010) Correcting eddy current and motion effects by affine whole-brain registrations: evaluation of three-dimensional distortions and comparison with slicewise correction. Magn Reson Med 64: 1047-1056; doi: 10.1002/mrm.22501.

HySCo - Hyperelastic Susceptibility Artifact Correction for DTI

Ruthotto L, Kugel H, Olesch J, Fischer B, Modersitzki J, Burger M, and Wolters C H.
Diffeomorphic Susceptibility Artefact Correction of Diffusion-Weighted Magnetic Resonance Images.
Physics in Medicine and Biology, 57(18), 5715-5731; 2012, doi: 10.1088/0031-9155/57/18/5715.

Ruthotto L, Mohammadi S, Heck C, Modersitzki J, and Weiskopf N.
HySCO - Hyperelastic Susceptibility Artifact Correction of DTI in SPM.
Presented at the Bildverarbeitung fuer die Medizin 2013.

J. Modersitzki: FAIR: Flexible Algorithms for Image Registration. SIAM, Philadelphia, 2009.

Fit Diffusion Tensor

Mohammadi S, Hutton C, Nagy Z, Josephs O, Weiskopf N (2012), Retrospective correction of physiological noise in DTI using an extended tensor model and peripheral measurements. Magnetic Resonance in Medicine, (in press); doi: 10.1002/mrm.24467.

Mohammadi S, Freund P, Feiweier T, Curt A, Weiskopf N, The impact of post-processing on spinal cord diffusion tensor imaging, NeuroImage, Volume 70, 15 April 2013, Pages 377-385, doi: 10.1016/j.neuroimage.2012.12.058 .

COVIPER combination of Diffusion Tensor

Mohammadi S, Nagy Z, Hutton C, Josephs O, Weiskopf N. Correction of vibration artifacts in DTI using phase-encoding reversal (COVIPER). Magn Res Med 2012; 68: 882-889; doi: 10.1002/mrm.23308.

FA-VBS Normalisation toolbox

Mohammadi S, Keller SS, Glauche V, Kugel H, Jansen A, Hutton C, Flšel A, Deppe M (2012). The Influence of Spatial Registration on Detection of Cerebral Asymmetries Using Voxel-Based Statistics of Fractional Anisotropy Images and TBSS. PLoS ONE 7(6): e36851 doi:10.1371/journal.pone.0036851.

Glauche V, Mohammadi S, Deppe M (2010) SPM normalization toolbox for diffusion weighted images. Proc Intl Soc Mag Reson Med 18: Abstract 1648.

Mohammadi S, Glauche V, Deppe M (2009b) SPM normalization toolbox for voxel-based statistics on fractional anisotropy images. Proceedings of the 15th Human Brain Mapping meeting, June 18-23, 2009, San Fransisco, Neuroimage 47: S122.

Ashburner J, Friston KJ (1999) Nonlinear spatial normalization using basis functions. Hum Brain Mapp 7: 254-266, doi: 10.1002/(SICI)1097-0193(1999)7:4<254::AID-HBM4>3.0.CO;2-G.