Team
Samo is a skilled physicist with over 10 years’ experience working with our advanced diffusion MRI techniques to probe information on cell size, shape and organization.
At Random Walk Imaging, Samo is focused on the continued development of our diffusion MRI protocols and their implementation as part of every day clinical research.
Publications and Presentations
Combined diffusion-relaxometry microstructure imaging: Current status and future prospects
Magn Reson Med 2021 – P. J. Slator, M. Palombo, K. L. Miller, C.-F. Westin, F. Laun, D. Kim, et al.
Detection of acute nervous system injury with advanced diffusion-weighted MRI: a simulation and sensitivity analysis
NMR Biomed. 2015 – N. P. Skinner, S. N. Kurpad, B. D. Schmit, M. D. Budde
Eddy current compensated double diffusion encoded (DDE) MRI
Magn Reson Med. 2015 – L. Mueller, A. Wetscherek, T. Anselm Kuder, F. B. Laun
Characterizing magnetic resonance signal decay due to gaussian diffusion: The path integral approach and a convenient computational method
Concepts Magn Reson 2015 – E. Özarslan, C-F. Westin, T. H. Mareci
Orientation of Sticks and Spheres – Estimating Tensor Shape and Orientation Distribution using Diffusion NMR
Master Thesis, Lund University, 2015 – M. L. Noven
Rotating field gradient (RFG) MR offers improved orientational sensitivity
IEEE 12th International Symposium on Biomedical Imaging (ISBI), 2015 – E. Özarslan, M. Memiç, A. V. Avram, M. Afzali, P. J. Basser, C.-F. Westin
Multimodal neuroimaging computing: a review of the applications in neuropsychiatric disorders
Brain Informatics 2015 – S. Liu, W. Cai, S. Liu, F. Zhang, M. Fulham, et al.
Model-Based Estimation of Microscopic Anisotropy in Macroscopically Isotropic Substrates Using Diffusion MRI
IPMI 2015 – A. Ianuş, I. Drobnjak & D. C. Alexander
MRI measurements of reporter-mediated increases in transmembrane water exchange enable detection of a gene reporter
Nat Biotechnol 2016 – F. Schilling, S. Ros, E.-E. Hu, P. D’Santos, S. McGuire, et al.
A two-pool model to describe the IVIM cerebral perfusion
J. Cereb. Blood Flow Metab. 2016 – G. Fournet, J.-R. Li, A. M. Cerjanic, B. P. Sutton, L. Ciobanu, D. Le Bihan
Microstructure Imaging Sequence Simulation Toolbox
SASHIMI 2016 – A. Ianuş, D. C. Alexander & I. Drobnjak
Advanced diffusion MRI for microstructure imaging: theoretical developments
PhD thesis 2016, University College London – A. Savickas
Simultaneous Assessment of White Matter Changes in Microstructure and Connectedness in the Blind Brain
Neural Plast. 2016 – N. L. Reislev, T. B. Dyrby, H. R. Siebner, R. K. and M. Ptito
NMR signal for particles diffusing under potentials: From path integrals and numerical methods to a model of diffusion anisotropy
Phys Rev E 2016 – C. Yolcu, M. Memiç, K. Şimşek, C.-F. Westin and E. Özarslan
Fundamentals of diffusion MRI physics
NMR Biomed 2017 – V. G. Kiselev
Imaging Local Diffusive Dynamics Using Diffusion Exchange Spectroscopy MRI
Phys Rev 2017 – D. Benjamini, M. E. Komlosh, and P. J. Basser
Evaluation and comparison of diffusion MR methods for measuring apparent transcytolemmal water exchange rate constant
J. Magn. Reson. 2017 – X. Tian, H. Li, X. Jiang, J. Xie, J. C.Gore, J. Xu
Experimental validation of a bias in apparent exchange rate measurement
Curr. Dir. Biomed. Eng. 2017 – P. Ulloa, V. Methot and M. A. Koch
Characterization of the diffusion coefficient of blood
Magn Reson Med. 2017 – C. Funck, F. B. Laun, A. Wetscherek
Separating blood and water: Perfusion and free water elimination from diffusion MRI in the human brain
NeuroImage 2017 – A. S.Rydhög, F. Szczepankiewicz, R. Wirestam, A. Ahlgren, C.-F. Westin, et al.
Improved Estimation of Microscopic Tissue Parameters by Double Diffusion Encoding and Flow-Compensated Single Diffusion Encoding Magnetic Resonance Imaging
PhD Thesis, 2017, University of Heidelberg – L. Müller
Measuring Microscopic Anisotropy with Diffusion Magnetic Resonance: From Material Science to Biomedical Imaging
Math. Vis. 2017 – A. Ianuş, N. Shemesh, D. C. Alexander & I. Drobnjak
Comparative analysis of isotropic diffusion weighted imaging sequences
J. Magn. Reson. 2017 – S. Vellmer, R. Stirnberg, D. Edelhoff, D. Sutera, T. Stöcker, I. I.Maximova
Magnetic resonance microdynamic imaging reveals distinct tissue microenvironments
NeuroImage 2017 – D. Benjamini, P. J. Basser
Studying neuroanatomy using MRI
Nat. Neurosci. 2017 – J. P. Lerch, A. J. W. van der Kouwe, A. Raznahan, T. Paus, H. Johansen-Berg, et al.
Intravoxel incoherent motion MRI as a means to measure in vivo perfusion: A review of the evidence
NMR Biomed 2017 – C. Federau
Double diffusion encoding MRI for the clinic
Magn. Reson. Med. 2018 – G. Yang, Q. Tian, C. Leuze, M. Wintermark and J. A. McNab
Physical and numerical phantoms for the validation of brain microstructural MRI: A cookbook
NeuroImage 2018 – E. Fieremans, H.-H. Lee
Rapid detection of the presence of diffusion exchange
J. Magn. Reson. 2018 – T. X. Cai, D. Benjamini, M. E. Komlosh, P. J. Basser, N. H. Williamson
Validation strategies for the interpretation of microstructure imaging using diffusion MRI
NeuroImage 2018 – T. B. Dyrby, G. M. Innocenti, M. Bech, H. Lundell
Intravoxel incoherent motion modeling – Optimization of acquisition, analysis and tumor tissue characterization
PhD Thesis, 2018, Gothenburg University – O. Jalnefjord
Characterizing intra-axonal water diffusion with direction-averaged triple diffusion encoding MRI
NMR Biomed 2018 – J. H. Jensen, J. A. Helpern
Diffusion gradient performance optimization for B-tensor encoded q-space trajectory imaging of the human brain
Proc. ISMRM 2018 – J. Martin, A. Wetscherek, L. Müller, T. A. Kuder, M. Uder, et al.
D: The Diffusion of Water (DTI)
Quantitative MRI of the Brain: Principles of Physical Measurement, CRC Press 2018 – F. Grussu, C. A.M. G. Wheeler-Kingshott
TE dependent Diffusion Imaging (TEdDI) distinguishes between compartmental T2 relaxation times
NeuroImage 2018 – J. Veraart, D. S.Novikov, E. Fieremans
Integrated and efficient diffusion-relaxometry using ZEBRA
Sci. Rep. 2018 – J. Hutter, P. J. Slator, D. Christiaens, R. P. A. G. Teixeira, T. Roberts, et al.
Advanced Diffusion Models 1
Quantitative MRI of the Brain: Principles of Physical Measurement, CRC Press 2018 – A. Ghosh, A. Ianus, D. C. Alexander
Magnetic resonance temporal diffusion tensor spectroscopy of disordered anisotropic tissue
Sci. Rep. 2018 – J. S. Nielsen, T. B. Dyrby & H. Lundell
Advances in microstructural diffusion neuroimaging for psychiatric disorders
NeuroImage 2018 – O. Pasternak, S. Kelly, V. J. Sydnor, M. E. Shenton
Double Diffusion Encoding Prevents Degeneracy in Parameter Estimation of Biophysical Models in Diffusion MRI
arXiv 2018 – S. Coelho, J. M. Pozo, S. N. Jespersen, D. K. Jones, A. F. Frangi
Accurate estimation of microscopic diffusion anisotropy and its time dependence in the mouse brain
NeuroImage 2018 – A. Ianuş, S. N. Jespersen, T. S. Duarte, D. C. Alexander, I. Drobnjak, N. Shemesh
The absence of restricted water pool in brain white matter
NeuroImage 2018 – B. Dhital, E. Kellner, V. G. Kiselev, M. Reisert
Rotationally-invariant mapping of scalar and orientational metrics of neuronal microstructure with diffusion MRI
NeuroImage 2018 – D. S. Novikov, J. Veraart, I. O. Jelescu, E. Fieremans
Commentary on “Microanisotropy imaging: quantification of microscopic diffusion anisotropy and orientation of order parameter by diffusion MRI with magic-angle spinning of the q-vector”
Front. Phys. 2014 – S. N. Jespersen, H. Lundell, C. K. Sønderby and T. B. Dyrby
Tractometry and the hunt for the missing link: A physicist perspective
Microstructures of Learning: Novel methods and approaches for assessing structural and functional changes underlying knowledge acquisition in the brain. Lund University Press. 2014 – D. Jones and M. Nilsson
Apparent exchange rate imaging in anisotropic systems
Magn Reson Med. 2013 – C. K. Sønderby, H. M. Lundell, L. V. Søgaard, T. B. Dyrby
Accurate noninvasive measurement of cell size and compartment shape anisotropy in yeast cells using double-pulsed field gradient MR
NMR Biomed. 2011 – N. Shemesh, E. Özarslan, P. J. Basser, Y. Cohen
Measuring non-parametric distributions of intravoxel mean diffusivities using a clinical MRI scanner
Neuroimage 2019 – A. V. Avram, J. E. Sarlls and P. J. Basser
Isotropically weighted intravoxel incoherent motion brain imaging at 7T
Magn Reson Imaging 2019 – I. Maximov and S. Vellmer
Effects of nongaussian diffusion on “isotropic diffusion” measurements: an ex-vivo microimaging and simulation study
J. Magn. Reson. 2019 – S. N. Jespersen, J. L. Olesen, A. Ianuş and N. Shemesh
Microscopic anisotropy misestimation in spherical-mean single diffusion encoding MRI
Magn Reson Med 2019 – R. N. Henriques, S. N. Jespersen and N. Shemesh
Intra-axonal diffusivity in brain white matter
Neuroimage 2019 – B. Dhital, M. Reisert, E. Kellner and V. G. Kiselev
On the influence of field strength and diffusion time dependence in magnetic resonance microscopic diffusion imaging
PhD Thesis, 2019, Erlangen University – J. Martin
Advances in Diffusion and Perfusion MRI for Quantitative Cancer Imaging
Curr Pathobiol Rep 2019 – M. Baboli, J. Zhang & S. G. Kim
Nuclear magnetic resonance investigation of water transport through the plasma membrane of various yeast species
FEMS Microbiol. Lett. 2019 – M. Šoltésová, H. Elicharová, P. Srb, M. Růžička, L. Janisova, et al.
Advanced encoding methods in diffusion MRI
arXiv 2018 – A. Reymbaut, M. Descoteaux
Optimal Experimental Design for Biophysical Modelling in Multidimensional Diffusion MRI
MICCAI 2019 – S. Coelho, J. M. Pozo, S. N. Jespersen & A. F. Frangi
Diffusion MRI for Well-posed and Optimal White Matter Microstructure Characterisation: Beyond Single Diffusion Encoding
PhD Thesis, 2019, The University of Leeds – S. Coelho
Diffusion Encoding Waveform Design for Mapping Microstructure in the Human Brain
PhD Thesis, 2019, Stanford University – Y. G. Kaijuin
Triple diffusion encoding MRI predicts intra-axonal and extra-axonal diffusion tensors in white matter
Magn Reson Med 2020 – S. Ramanna, H. G. Moss, E. T. McKinnon, E. Yacoub, J. A. Helpern, J. H. Jensen
Contrast-to-noise ratio analysis of microscopic diffusion anisotropy indices in q-space trajectory imaging
Zeitschrift für Medizinische Physik 2020 – J. Martin, S. Endt, A. Wetscherek, T. A. Kuder, A. Doerfler, et al.
Direction-averaged diffusion-weighted MRI signal using different axisymmetric B-tensor encoding schemes
Magn Reson Med 2020 – M. Afzali, S. Aja-Fernández and D. K. Jones
The dot-compartment revealed? Diffusion MRI with ultra-strong gradients and spherical tensor encoding in the living human brain
Neuroimage 2020 – C. M. W. Tax, F. Szczepankiewicz, M. Nilsson and D. K. Jones
A 4D basis and sampling scheme for the tensor encoded multi-dimensional diffusion MRI signal
IEEE Signal Processing Letters 2020 – A. P. Bates, A. Daducci, P. Sadeghi, E. Caruyer
Constant gradient FEXSY: A time-efficient method for measuring exchange
J. Magn. Reson. 2020 – Y. Scher, S. Reuveni, Y. Cohen
Translational Motion of Water in Biological Tissues – A Brief Primer
In Advanced Diffusion Encoding Methods in MRI 2020 – D. Topgaard
Real-time measurement of diffusion exchange rate in biological tissue
J. Magn. Reson. 2020 – N. H. Williamson, R. Ravin, T. X.Cai, D. Benjamini, M. Falgairolle, et al.
Disentangling Intercompartment Exchange from Restricted Diffusion
In Advanced Diffusion Encoding Methods in MRI, 2020 – M. Schillmaier, A. Kaika, F. Schilling
Resolving orientation-specific diffusion-relaxation features via Monte-Carlo density-peak clustering in heterogeneous brain tissue
arXiv 2020 – A. Reymbaut, J. P. de Almeida Martins, C. M. W. Tax, F. Szczepankiewicz, D. K. Jones, D. Topgaard
Fast and accurate initialization of the free-water imaging model parameters from multi-shell diffusion MRI
NMR Biomed 2020 – Ø. Bergmann, R. Henriques, C.-F. Westin, O. Pasternak
Disimpy: A massively parallel Monte Carlo simulator for generating diffusion-weighted MRI data in Python
J. Open Source Softw. 2020 – L. Kerkelä, F. Nery, M. G. Hall and C. A. Clark
Probing the ballistic microcirculation in placenta using flow-compensated and non-compensated intravoxel incoherent motion imaging
Magn Reson Med 2021 – L. Jiang, T. Sun, Y. Liao, Y. Sun, Z. Qian, Y. Zhang, D. Wu
Assessment of the effects of mimicking tissue microstructural properties on apparent diffusion coefficient and apparent exchange rate in diffusion MRI via a series of specially designed phantoms
Magn Reson Med 2021 – X. Li, Y. Bai, Y. Liao, X. Xin
Apparent exchange rate imaging: On its applicability and the connection to the real exchange rate
Magn Reson Med 2021 – D. Ludwig, F. B. Laun, M. E. Ladd, P. Bachert and T. Anselm Kuder
Accuracy and precision in super-resolution MRI: Enabling spherical tensor diffusion encoding at ultra-high b-values and high resolution
Neuroimage 2021 – G. Vis, M. Nilsson, C.-F. Westin and F. Szczepankiewicz
Enabling constrained spherical deconvolution and diffusional variance decomposition with tensor-valued diffusion MRI
bioRxiv 2021 – P. Karan, A. Reymbaut, G. Gilbert and M. Descoteaux
A Signal Peak Separation Index for axisymmetric B-tensor encoding
In Computational Diffusion MRI, 2021 – G. Rensonnet, J. Rafael-Patiño, B. Macq, J.-P. Thiran, G. Girard & M. Pizzolato
Neural Networks for parameter estimation in microstructural MRI: a study with a high-dimensional diffusion-relaxation model of white matter microstructure
Neuroimage 2021 – J. P. de Almeida Martin, M. Nilsson, B. Lampinen, M. Palombo, P. T. While, et al.
Rapid microscopic fractional anisotropy imaging via an optimized linear regression formulation
medRxiv 2021 – N. J. J. Arezza, H. Y. Tse, C. A. Baron
In vivo tensor-valued diffusion MRI of focal demyelination in white and deep grey matter of rodents
NeuroImage Clin. 2021 – Y. He, S. Aznar, H. R. Siebner and T. B. Dyrby
Cross-term-compensated gradient waveform design for tensor-valued diffusion MRI
J. Magn. Reson. 2021 – F. Szczepankiewicz and J. Sjölund
A new framework for MR diffusion tensor distribution
Sci. Rep. 2021 – K. N. Magdoom, S. Pajevic, G. Dario and P. J. Basser
High-resolution microscopic diffusion anisotropy imaging in the human hippocampus at 3T
Magn Reson Med 2021 – J. Yoo, L. Kerkelä, P. W. Hales, K. K. Seunarine and C. A. Clark
Q-space trajectory imaging with positivity constraints (QTI+)
Neuroimage 2021 – M. Herberthson, D. Boito, T. Dela Haije, A. Feragen, C.-F. Westin, E. Özarslan
Test-retest reproducibility of in vivo oscillating gradient and microscopic anisotropy diffusion MRI in mice at 9.4 Tesla
PloS One 2021 – N. Rahman, K. Xu, M. Omer, M. D. Budde, A. Brown, C. A. Baron
Histogram analysis of tensor-valued diffusion MRI in meningiomas: Relation to consistency, histological grade and type
NeuroImage Clin. 2021 – J. Brabec, F. Szczepankiewicz, F. Lennartsson, E. Englund, H. Pebdani, et al.
Brain tissues have single-voxel signatures in multi-spectral MRI
Neuroimage 2021 – A. German, A. German, A. Mennecke, J. Martin, J. Hanspach, A. Liebert, et al.
Quantification of Tissue Microstructure Using Tensor-Valued Diffusion Encoding: Brain and Body
Front Phys 2022 – M. Afzali, L. Mueller, F. Szczepankiewicz, D. K. Jones and J. E. Schneider
SPHERIOUSLY? The challenges of estimating sphere radius non-invasively in the human brain from diffusion MRI
Neuroimage 2021 – M. Afzali, M. Nilsson, M. Palombo and D. K. Jones
On the potential for mapping apparent neural soma density via a clinically viable diffusion MRI protocol
Neuroimage 2021 – N. G. Gyori, C. A. Clark, D. C. Alexander and E. Kaden
Nonparametric D-R1-R2 distribution MRI of the living human brain
Neuroimage 2021 – J. Martin, A. Reymbaut, M. Schmidt, A. Doerfler, M. Uder, et al.
Multi-tissue spherical deconvolution of tensor-valued diffusion MRI
Neuroimage 2021 – B. Jeurissen and F. Szczepankiewicz
Probing tissue microstructure by diffusion skewness tensor imaging
Sci. Rep. 2021 – L. Ning, F. Szczepankiewicz, M. Nilsson, Y. Rathi and C.-F. Westin
Comparative analysis of signal models for microscopic fractional anisotropy estimation using q-space trajectory encoding
Neuroimage 2021 – L. Kerkelä, F. Nery, R. Callaghan, F. Zhou, N. G.Gyori, et al.
Probing brain microstructure with multidimensional diffusion MRI: Encoding, interpretation, and the role of exchange
PhD Thesis, 2021, Lund University – B. Lampinen
Assessment of the effects of mimicking tissue microstructural properties on apparent diffusion coefficient and apparent exchange rate in diffusion MRI via a series of specially designed phantoms
Magn Reson Med 2021 – X. Li, Y. Bai, Y. Liao, S. X. Xin
aDWI-BIDS: an extension to the brain imaging data structure for advanced diffusion weighted imaging
arXiv 2021 – J. Gholam, F. Szczepankiewicz, C. M.W. Tax, L. Mueller, E. Kopanoglu, et al.
Diffusional Kurtosis Imaging in the Diffusion Imaging in Python Project
Front. Hum. Neurosci. 2021 – R. N. Henriques, M. M. Correia, M. Marrale, E. Huber, J. Kruper, et al.
