137 citations · 1.3k across the 36 of their papers we have counts for
37 papers
Axonal microstructure and compartmentalization impact the orientation and time dependence of mesoscopic transverse relaxation
Anders Dyhr Sandgaard, Rafael Neto Henriques, Noam Shemesh +1
In biological tissue, MR transverse relaxation stems from mechanisms spanning multiple scales, from molecular dipole-dipole interactions to mesoscopic field variations driven by ti…
Considerations and recommendations from the ISMRM Diffusion Study Group for preclinical diffusion MRI: Part 3 -- Ex vivo imaging: data processing, comparisons with microscopy, and tractography
Kurt G Schilling, Amy FD Howard, Francesco Grussu +55
Preclinical diffusion MRI (dMRI) has proven value in methods development and validation, characterizing the biological basis of diffusion phenomena, and comparative anatomy. While…
The Larmor frequency shift of a white matter magnetic microstructure model with multiple sources
Anders Dyhr Sandgaard, Noam Shemesh, Leif Østergaard +2
Magnetic susceptibility imaging may provide valuable information about chemical composition and microstructural organization of tissue. However, its estimation from the MRI signal…
MP-PCA denoising of fMRI time-series data can lead to artificial activation "spreading"
Francisca F. Fernandes, Jonas L. Olesen, Sune N. Jespersen +1
MP-PCA denoising has become the method of choice for denoising in MRI since it provides an objective threshold to separate the desired signal from unwanted thermal noise components…
Considerations and recommendations from the ISMRM Diffusion Study Group for preclinical diffusion MRI: Part 2 -- Ex vivo imaging: added value and acquisition
Kurt G Schilling, Francesco Grussu, Andrada Ianus +54
The value of preclinical diffusion MRI (dMRI) is substantial. While dMRI enables in vivo non-invasive characterization of tissue, ex vivo dMRI is increasingly used to probe tissue…
Considerations and Recommendations from the ISMRM Diffusion Study Group for preclinical diffusion MRI: Part 1 -- In vivo small-animal imaging
Ileana O Jelescu, Francesco Grussu, Andrada Ianus +54
Small-animal diffusion MRI (dMRI) has been used for methodological development and validation, characterizing the biological basis of diffusion phenomena, and comparative anatomy.…
Incorporating the effect of white matter microstructure in the estimation of magnetic susceptibility in ex-vivo mouse brain
Anders Dyhr Sandgaard, Valerij G. Kiselev, Rafael Neto Henriques +2
Accurate estimation of microscopic magnetic field variations induced in biological tissue can be valuable for mapping tissue composition in health and disease. Here, we present an…
To mask or not to mask? Investigating the impact of accounting for spatial frequency distributions and susceptibility sources on QSM quality
Anders Dyhr Sandgaard, Noam Shemesh, Sune Nørhøj Jespersen +1
Estimating magnetic susceptibility using MRI depends on inverting a forward relationship between the susceptibility and measured Larmor frequency. However, an often-overlooked cons…
Tensor denoising of high-dimensional MRI data
Jonas L. Olesen, Andrada Ianus, Leif Østergaard +2
The signal to noise ratio (SNR) fundamentally limits the information accessible by magnetic resonance imaging (MRI). This limitation has been addressed by a host of denoising techn…
Larmor frequency shift from magnetized cylinders with arbitrary orientation distribution
Anders Dyhr Sandgaard, Noam Shemesh, Valerij G. Kiselev +1
We present a theoretical framework for the NMR and MRI measured Larmor frequency in media with magnetized microstructure using the mesoscopic Lorentz sphere and the principle of co…
Diffusion time dependence, power-law scaling, and exchange in gray matter
Jonas L. Olesen, Leif Østergaard, Noam Shemesh +1
Diffusion MRI (dMRI) provides contrast that reflect diffusing spins' interactions with microstructural features of biological systems, but its specificity remains limited due to th…
Evidence for microscopic kurtosis in neural tissue revealed by Correlation Tensor MRI
Rafael Neto Henriques, Sune Nørhøj Jespersen, Noam Shemesh
Purpose: The impact of microscopic diffusional kurtosis () - arising from restricted diffusion and/or structural disorder - remains a controversial issue in contemporary diffus…
Double diffusion encoding and applications for biomedical imaging
Rafael N. Henriques, Marco Palombo, Sune N. Jespersen +3
Diffusion Magnetic Resonance Imaging (dMRI) is one of the most important contemporary non-invasive modalities for probing tissue structure at the microscopic scale. The majority of…
Effective bowel motion reduction in mouse abdominal MRI using hyoscine butylbromide
Carlos Bilreiro, Francisca F. Fernandes, Luísa Andrade +4
Purpose: Bowel motion is a significant source of artifacts in mouse abdominal MRI. Fasting and administration of hyoscine butylbromide (BUSC) have been proposed for bowel motion re…
Ultrafast functional magnetic resonance imaging reveals neuroplasticity-driven timing modulations
Rita Gil, Francisca F. Fernandes, Noam Shemesh
Functional Magnetic Resonance Imaging (fMRI) is predominantly harnessed for spatially mapping activation foci along distributed pathways. However, resolving dynamic information on…
In-vivo Magnetic Resonance Imaging of GABA and Glutamate
Frederico Severo, Noam Shemesh
Chemical Exchange Saturation Transfer (CEST) Magnetic Resonance Imaging (MRI) is a molecular imaging methodology capable of mapping brain metabolites with relatively high spatial r…
A rapid-onset diffusion functional MRI signal reflects neuromorphological coupling dynamics
Daniel Nunes, Rita Gil, Noam Shemesh
Functional Magnetic Resonance Imaging (fMRI) has transformed our understanding of brain function in-vivo. However, the neurovascular coupling mechanisms underlying fMRI are somewha…
Functional Magnetic Resonance Spectroscopy in the mouse
Clémence Ligneul, Francisca F. Fernandes, Noam Shemesh
Functional magnetic resonance spectroscopy (fMRS) quantifies metabolic variations upon presentation of a stimulus and can therefore provide complementary information compared to fu…
Validation and noise robustness assessment of microscopic anisotropy estimation with clinically feasible double diffusion encoding MRI
Leevi Kerkelä, Rafael Neto Henriques, Matt G. Hall +2
Purpose: Double diffusion encoding (DDE) MRI enables the estimation of microscopic diffusion anisotropy, yielding valuable information on tissue microstructure. A recent study prop…
Correlation Tensor Magnetic Resonance Imaging
Rafael Neto Henriques, Sune Nørhøj Jespersen, Noam Shemesh
Diffusional Kurtosis Imaging (DKI) is a sensitive biomarker for microstructure in health and disease. However, DKI is not specific to any microstructural property since it may emer…
SANDI: a compartment-based model for non-invasive apparent soma and neurite imaging by diffusion MRI
Marco Palombo, Andrada Ianus, Daniel Nunes +4
This work introduces a compartment-based model for apparent soma and neurite density imaging (SANDI) using non-invasive diffusion-weighted MRI (DW-MRI). The existing conjecture in…
Short echo time relaxation-enhanced MR spectroscopy reveals broad downfield resonances
Sónia I. Gonçalves, Clémence Ligneul, Noam Shemesh
Purpose: Most MR spectroscopy (MRS) pulse sequences rely on broadband excitation with water saturation and typically focus on upfield signals. By contrast, the downfield spectrum,…
Evaluation of principal component analysis image denoising on multi-exponential MRI relaxometry
Mark D. Does, Jonas Lynge Olesen, Kevin D. Harkins +4
PURPOSE: Multi-exponential relaxometry is a powerful tool for characterizing tissue, but generally requires high image signal-to-noise ratio (SNR). This work evaluates the use of p…
Microscopic anisotropy misestimation in spherical-mean single diffusion encoding MRI
Rafael Neto Henriques, Sune N Jespersen, Noam Shemesh
Purpose: Microscopic fractional anisotropy (μFA) can disentangle microstructural information from orientation dispersion. While double diffusion encoding (DDE) MRI methods are wide…