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Segmented simultaneous multi-slice diffusion-weighted imaging with navigated 3D rigid motion correction

Malte Riedel Né Steinhoff, Kawin Setsompop, Alfred Mertins, Peter Börnert
2021 Magnetic Resonance in Medicine  
To improve the robustness of diffusion-weighted imaging (DWI) data acquired with segmented simultaneous multi-slice (SMS) echo-planar imaging (EPI) against in-plane and through-plane rigid motion.  ...  This work demonstrates the feasibility of retrospective 3D rigid motion correction from shot navigators for segmented SMS DWI.  ...  Single-shot echo-planar imaging (EPI) has for years been the clinical standard for DWI, as it suppresses motion artifacts by fast one-time k-space traversal 2 being commonly accelerated by parallel imaging  ... 
doi:10.1002/mrm.28813 pmid:33955588 fatcat:kj6sweufhba75pew4wm7lpdosy

Diffeomorphic Image Registration of Diffusion MRI Using Spherical Harmonics

Xiujuan Geng, T J Ross, Hong Gu, Wanyong Shin, Wang Zhan, Yi-Ping Chao, Ching-Po Lin, N Schuff, Yihong Yang
2011 IEEE Transactions on Medical Imaging  
Non-rigid registration of diffusion MRI is crucial for group analyses and building white matter and fiber tract atlases.  ...  Most current diffusion MRI registration techniques are limited to the alignment of diffusion tensor imaging (DTI) data.  ...  Acknowledgments This work was supported by the Intramural Research Program of the National Institute on Drug Abuse (NIDA), National Institute of Health (NIH).  ... 
doi:10.1109/tmi.2010.2095027 pmid:21134814 pmcid:PMC3860760 fatcat:atpdbzpf6fbq3avli37uackjyi

Cortical surface registration using unsupervised learning

Jieyu Cheng, Adrian V. Dalca, Bruce Fischl, Lilla Zöllei
2020 NeuroImage  
Non-rigid cortical registration is an important and challenging task due to the geometric complexity of the human cortex and the high degree of inter-subject variability.  ...  We propose a resampling weight in computing the data fitting loss to account for distortions introduced by polar projection, and demonstrate the performance of our proposed method on two tasks, including  ...  Introduction Non-rigid shape registration is an important area of research in medical imaging, in particular for establishing cross-subject spatial correspondence in the cerebral cortex.  ... 
doi:10.1016/j.neuroimage.2020.117161 pmid:32702486 pmcid:PMC7784120 fatcat:7eqo3zodxbgg5j7lmf4z2qkyme

Diffusion MRI Registration Using Orientation Distribution Functions [chapter]

Xiujuan Geng, Thomas J. Ross, Wang Zhan, Hong Gu, Yi-Ping Chao, Ching-Po Lin, Gary E. Christensen, Norbert Schuff, Yihong Yang
2009 Lecture Notes in Computer Science  
The similarity cost of the registration is defined by the ODF shape distance calculated from the spherical harmonic coefficients.  ...  The ODFs were reconstructed using a q-ball imaging (QBI) technique to resolve intravoxel fiber crossing.  ...  Acknowledgments This work was supported by the Intramural Research Program of the National Institute on Drug Abuse (NIDA), National Institute of Health (NIH).  ... 
doi:10.1007/978-3-642-02498-6_52 fatcat:wduvcqwsmvbidpvytzmq5j3eee

Evaluating similarity measures for brain image registration

Q.R. Razlighi, N. Kehtarnavaz, S. Yousefi
2013 Journal of Visual Communication and Image Representation  
Evaluation of similarity measures for image registration is a challenging problem due to its complex interaction with the underlying optimization, regularization, image type and modality.  ...  We propose a single performance metric, named robustness, as part of a new evaluation method which quantifies the effectiveness of similarity measures for brain image registration while eliminating the  ...  Acknowledgments This work was partially supported by National Institute of Health -National Institute of Aging through a T32 federal grant number AG000261-12.  ... 
doi:10.1016/j.jvcir.2013.06.010 pmid:24039378 pmcid:PMC3771653 fatcat:ttfa4wig2jhojaaae7nmhrqegm

Cortical surface registration using unsupervised learning [article]

Jieyu Cheng, Adrian V. Dalca, Bruce Fischl, Lilla Zollei
2020 arXiv   pre-print
Non-rigid cortical registration is an important and challenging task due to the geometric complexity of the human cortex and the high degree of inter-subject variability.  ...  We propose a resampling weight in computing the data fitting loss to account for distortions introduced by polar projection, and demonstrate the performance of our proposed method on two tasks, including  ...  Introduction Non-rigid shape registration is an important area of research in medical imaging, in particular for establishing cross-subject spatial correspondence in the cerebral cortex.  ... 
arXiv:2004.04617v2 fatcat:kexmfiiu5bhvnig546qbbsuip4

Modeling & Analysis

2003 NeuroImage  
Abstract A new neural network algorithm has been developed for the automatic visual segmentation of T1-weighted 3-D head magnetic resonance images.  ...  Abstract Order of appearance: 789 Abstract Background Magnetic resonance may provide image series describing cerebral functionalities correlated with external stimuli[1].  ...  Conclusion We propose a processing chain to analyse structural brain changes in time series of MR images.  ... 
doi:10.1016/s1053-8119(05)70006-9 fatcat:zff2suxcofbxvetfrwfwcxi3zm

École de Physique des Houches [chapter]

2006 Les Houches  
Established in 1951, the Physics School is located in a group of chalets surrounded by meadows and woods, at an altitude of 1150 m facing the Mont-Blanc range -a very favourable environment for intellectual  ...  activity in ideal surroundings for skiing, hiking or mountaineering.  ...  C., Obry, F., Waltmann, E., Hadj-Rabia, S., Bodemer, C., Alembik, Y., Lesot, H., and Schmittbuhl, M. (2008) correlaTive analysis of recurrenT MulTicolor fluorescence iMaGes To characTerize in vivo  ... 
doi:10.1016/s0924-8099(06)80084-3 fatcat:6w7diik2k5af7cpowh4xz3nsky

ÉCole De Physique Des Houches [chapter]

2007 Les Houches  
Established in 1951, the Physics School is located in a group of chalets surrounded by meadows and woods, at an altitude of 1150 m facing the Mont-Blanc range -a very favourable environment for intellectual  ...  activity in ideal surroundings for skiing, hiking or mountaineering.  ...  C., Obry, F., Waltmann, E., Hadj-Rabia, S., Bodemer, C., Alembik, Y., Lesot, H., and Schmittbuhl, M. (2008) correlaTive analysis of recurrenT MulTicolor fluorescence iMaGes To characTerize in vivo  ... 
doi:10.1016/s0924-8099(13)60020-7 fatcat:jydcwidbbnf3nppqp4x3pyu6ga

École de Physique des Houches [chapter]

2008 Les Houches  
Established in 1951, the Physics School is located in a group of chalets surrounded by meadows and woods, at an altitude of 1150 m facing the Mont-Blanc range -a very favourable environment for intellectual  ...  activity in ideal surroundings for skiing, hiking or mountaineering.  ...  C., Obry, F., Waltmann, E., Hadj-Rabia, S., Bodemer, C., Alembik, Y., Lesot, H., and Schmittbuhl, M. (2008) correlaTive analysis of recurrenT MulTicolor fluorescence iMaGes To characTerize in vivo  ... 
doi:10.1016/s0924-8099(13)60004-9 fatcat:nxiezedqabbbtnfqonvw6c3doi

Quality assessment of anatomical MRI images from Generative Adversarial Networks: human assessment and image quality metrics [article]

Matthias S Treder, Ryan Codrai, Kamen A Tsvetanov
2022 bioRxiv   pre-print
Reference human data was obtained by recruiting neuroimaging experts to assess real Magnetic Resonance (MR) images and images generated by a Wasserstein GAN.  ...  of brain images produced by GANs.  ...  KAT was supported by the Guarantors of Brain (G101149).  ... 
doi:10.1101/2022.01.03.474792 fatcat:jtlqr7r2wzcrvh3obngfvvwite

Comparing Cyclicity Analysis With Pre-established Functional Connectivity Methods to Identify Individuals and Subject Groups Using Resting State fMRI

Somayeh Shahsavarani, Ivan T. Abraham, Benjamin J. Zimmerman, Yuliy M. Baryshnikov, Fatima T. Husain
2020 Frontiers in Computational Neuroscience  
of the brain.  ...  The resting state fMRI time series appears to have cyclic patterns, which indicates presence of cyclic interactions between different brain regions.  ...  magnetic resonance imaging (fMRI) data.  ... 
doi:10.3389/fncom.2019.00094 pmid:32038211 pmcid:PMC6984040 fatcat:diwhjsmqnjhhhiqd5ajebm5br4

Dynamic causal modelling of phase-amplitude interactions [article]

Erik D. Fagerholm, Rosalyn J. Moran, Ines R. Violante, Robert Leech, Karl J. Friston
2019 arXiv   pre-print
We then demonstrate, using local field potential recordings in rodents and functional magnetic resonance imaging in macaque monkeys, that amplitudes in oscillator models play an important role in describing  ...  This allows for the separate quantifications of phase and amplitude contributions to the connectivity between neural regions.  ...  (Xu et al., 2018) . fMRI data pre-processing: We pre-process the data using the FSL image analysis tools as follows: each 4D fMRI scan is registered to a single echo planar image from an earlier session  ... 
arXiv:1909.08509v1 fatcat:hzykhkvfevfphp44knpkaoz4k4

Modelling the data and not the images in FMRI [article]

Thomas Wilhelm Dieter Möbius
2018 arXiv   pre-print
The standard approach to the analysis of functional magnetic resonance imaging (FMRI) data applies various preprocessing steps to the original FMRI.  ...  A genuine approach to the statistical analysis of FMRI data of brain scans is derived from first principles that is deeply rooted in statistical test theory.  ...  Introduction In their review of the implementation and use of the gen eral linear model (GLM) in functional magnetic resonance imaging (FMRI) analysis, Poline and Brett (1) make the observation that the  ... 
arXiv:1809.07232v1 fatcat:ntc2lmsyobhcfgb2uqjbpw5kyy

Dynamic causal modelling of phase-amplitude interactions

Erik D. Fagerholm, Rosalyn J. Moran, Inês R. Violante, Robert Leech, Karl J. Friston
2019 NeuroImage  
We then demonstrate, using local field potential recordings in rodents and functional magnetic resonance imaging in macaque monkeys, that amplitudes in oscillator models play an important role in describing  ...  This allows for the separate quantifications of phase and amplitude contributions to the connectivity between neural regions.  ...  Acknowledgements We would like to thank the reviewers, whose thorough feedback contributed significantly to the paper in its final form. E.D.F. and R.L were funded by the MRC (  ... 
doi:10.1016/j.neuroimage.2019.116452 pmid:31830589 fatcat:qqozzoshbrdfpazlf27p7ltriq
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