Ex vivo diffusion MRI of the human brain: Technical challenges and recent advances

High resolution anatomical and quantitative MRI of the entire human occipital lobe ex vivo at 9.4 T

(2018) S. Sengupta et al.   NEUROIMAGE

Histological validation of diffusion MRI fiber orientation distributions and dispersion

(2018) Kurt G. Schilling et al.   NEUROIMAGE

The separate effects of lipids and proteins on brain MRI contrast revealed through tissue clearing

(2017) Christoph Leuze et al.   NEUROIMAGE

Evaluating fibre orientation dispersion in white matter: Comparison of diffusion MRI, histology and polarized light imaging

(2017) Jeroen Mollink et al.   NEUROIMAGE

Wiring and Molecular Features of Prefrontal Ensembles Representing Distinct Experiences

(2016) Li Ye et al.   CELL

B0-orientation dependent magnetic susceptibility-induced white matter contrast in the human brainstem at 11.7T

(2016) Manisha Aggarwal et al.   MAGNETIC RESONANCE IN MEDICINE

The importance of correcting for signal drift in diffusion MRI

(2016) Sjoerd B. Vos et al.   MAGNETIC RESONANCE IN MEDICINE

Comparison of 3D orientation distribution functions measured with confocal microscopy and diffusion MRI

(2016) Kurt Schilling et al.   NEUROIMAGE

Ultra-High Field MRI Post Mortem Structural Connectivity of the Human Subthalamic Nucleus, Substantia Nigra, and Globus Pallidus

(2016) Birgit R. Plantinga et al.   Frontiers in Neuroanatomy

Dentatorubrothalamic tract localization with postmortem MR diffusion tractography compared to histological 3D reconstruction

(2015) J. Mollink et al.   Brain Structure & Function

Saturated Reconstruction of a Volume of Neocortex

(2015) Narayanan Kasthuri et al.   CELL

Detection of aberrant hippocampal mossy fiber connections: Ex vivo mesoscale diffusion MRI and microtractography with histological validation in a patient with uncontrolled temporal lobe epilepsy

(2015) Michel Modo et al.   HUMAN BRAIN MAPPING

Postmortem diffusion MRI of the human brainstem and thalamus for deep brain stimulator electrode localization

(2015) Evan Calabrese et al.   HUMAN BRAIN MAPPING

Strengths and weaknesses of state of the art fiber tractography pipelines – A comprehensive in-vivo and phantom evaluation study using Tractometer

(2015) Peter F. Neher et al.   MEDICAL IMAGE ANALYSIS

Advanced CUBIC protocols for whole-brain and whole-body clearing and imaging

(2015) Etsuo A Susaki et al.   Nature Protocols

Probing region-specific microstructure of human cortical areas using high angular and spatial resolution diffusion MRI

(2015) Manisha Aggarwal et al.   NEUROIMAGE

Diffusion tensor characteristics of gyrencephaly using high resolution diffusion MRI in vivo at 7T

(2015) Michiel Kleinnijenhuis et al.   NEUROIMAGE

3D structure tensor analysis of light microscopy data for validating diffusion MRI

(2015) Ahmad Raza Khan et al.   NEUROIMAGE

Superficial white matter fiber systems impede detection of long-range cortical connections in diffusion MR tractography

(2015) Colin Reveley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Histological validation of high-resolution DTI in human post mortem tissue

(2015) Arne Seehaus et al.   Frontiers in Neuroanatomy

Optical coherence tomography visualizes neurons in human entorhinal cortex

(2015) Caroline Magnain et al.   Neurophotonics

iDISCO: A Simple, Rapid Method to Immunolabel Large Tissue Samples for Volume Imaging

(2014) Nicolas Renier et al.   CELL

Space–time wiring specificity supports direction selectivity in the retina

(2014) Jinseop S. Kim et al.   NATURE

A mesoscale connectome of the mouse brain

(2014) Seung Wook Oh et al.   NATURE

Improving diffusion-weighted imaging of post-mortem human brains: SSFP at 7T

(2014) Sean Foxley et al.   NEUROIMAGE

Cross-validation of serial optical coherence scanning and diffusion tensor imaging: A study on neural fiber maps in human medulla oblongata

(2014) Hui Wang et al.   NEUROIMAGE

High angular resolution diffusion imaging with stimulated echoes: compensation and correction in experiment design and analysis

(2014) Henrik Lundell et al.   NMR IN BIOMEDICINE

Anatomical accuracy of brain connections derived from diffusion MRI tractography is inherently limited

(2014) Cibu Thomas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MR Diffusion Histology and Micro-Tractography Reveal Mesoscale Features of the Human Cerebellum

(2013) Flavio Dell’Acqua et al.   CEREBELLUM

Human and Monkey Ventral Prefrontal Fibers Use the Same Organizational Principles to Reach Their Targets: Tracing versus Tractography

(2013) S. Jbabdi et al.   JOURNAL OF NEUROSCIENCE

Viable and fixed white matter: Diffusion magnetic resonance comparisons and contrasts at physiological temperature

(2013) Simon Richardson et al.   MAGNETIC RESONANCE IN MEDICINE

Tractometer: Towards validation of tractography pipelines

(2013) Marc-Alexandre Côté et al.   MEDICAL IMAGE ANALYSIS

Connectomic reconstruction of the inner plexiform layer in the mouse retina

(2013) Moritz Helmstaedter et al.   NATURE

CLARITY for mapping the nervous system

(2013) Kwanghun Chung et al.   NATURE METHODS

Improved tools for the Brainbow toolbox

(2013) Dawen Cai et al.   NATURE METHODS

Feasibility of creating a high-resolution 3D diffusion tensor imaging based atlas of the human brainstem: A case study at 11.7T

(2013) Manisha Aggarwal et al.   NEUROIMAGE

The WU-Minn Human Connectome Project: An overview

(2013) David C. Van Essen et al.   NEUROIMAGE

The Human Connectome Project and beyond: Initial applications of 300mT/m gradients

(2013) Jennifer A. McNab et al.   NEUROIMAGE

Pushing spatial and temporal resolution for functional and diffusion MRI in the Human Connectome Project

(2013) Kamil Uğurbil et al.   NEUROIMAGE

Blockface histology with optical coherence tomography: A comparison with Nissl staining

(2013) Caroline Magnain et al.   NEUROIMAGE

BigBrain: An Ultrahigh-Resolution 3D Human Brain Model

(2013) K. Amunts et al.   SCIENCE

Layer-Specific Intracortical Connectivity Revealed with Diffusion MRI

(2012) C. W. U. Leuze et al.   CEREBRAL CORTEX

Histological Validation of DW-MRI Tractography in Human Postmortem Tissue

(2012) A. K. Seehaus et al.   CEREBRAL CORTEX

Layer-specific diffusion weighted imaging in human primary visual cortex in vitro

(2012) Michiel Kleinnijenhuis et al.   CORTEX

Three-dimensional imaging of solvent-cleared organs using 3DISCO

(2012) Ali Ertürk et al.   Nature Protocols

Human cortical connectome reconstruction from diffusion weighted MRI: The effect of tractography algorithm

(2012) Matteo Bastiani et al.   NEUROIMAGE

Examining brain microstructure using structure tensor analysis of histological sections

(2012) Matthew D. Budde et al.   NEUROIMAGE

Surface based analysis of diffusion orientation for identifying architectonic domains in the in vivo human cortex

(2012) Jennifer A. McNab et al.   NEUROIMAGE

Diffusion imaging of whole, post-mortem human brains on a clinical MRI scanner

(2011) Karla L. Miller et al.   NEUROIMAGE

Diffusion tractography of post-mortem human brains: Optimization and comparison of spin echo and steady-state free precession techniques

(2011) Karla L. Miller et al.   NEUROIMAGE

High-Resolution Fiber Tract Reconstruction in the Human Brain by Means of Three-Dimensional Polarized Light Imaging

(2011) Markus Axer et al.   Frontiers in Neuroinformatics

An ex vivo imaging pipeline for producing high-quality and high-resolution diffusion-weighted imaging datasets

(2010) Tim B. Dyrby et al.   HUMAN BRAIN MAPPING

Ground truth hardware phantoms for validation of diffusion-weighted MRI applications

(2010) Pim Pullens et al.   JOURNAL OF MAGNETIC RESONANCE IMAGING

Three-dimensional diffusion tensor microimaging for anatomical characterization of the mouse brain

(2010) Manisha Aggarwal et al.   MAGNETIC RESONANCE IN MEDICINE

DTI at long diffusion time improves fiber tracking

(2010) Swati Rane et al.   NMR IN BIOMEDICINE

Steady-state diffusion-weighted imaging: theory, acquisition and analysis

(2010) Jennifer A. McNab et al.   NMR IN BIOMEDICINE

Quantitative Histological Validation of Diffusion MRI Fiber Orientation Distributions in the Rat Brain

(2010) Trygve B. Leergaard et al.   PLoS One

Postmortem MRI of human brain hemispheres:T2relaxation times during formaldehyde fixation

(2009) Robert J. Dawe et al.   MAGNETIC RESONANCE IN MEDICINE

Aldehyde fixative solutions alter the water relaxation and diffusion properties of nervous tissue

(2009) Timothy M. Shepherd et al.   MAGNETIC RESONANCE IN MEDICINE

High resolution diffusion-weighted imaging in fixed human brain using diffusion-weighted steady state free precession

(2009) Jennifer A. McNab et al.   NEUROIMAGE

Neurite density from magnetic resonance diffusion measurements at ultrahigh field: Comparison with light microscopy and electron microscopy

(2009) Sune N. Jespersen et al.   NEUROIMAGE

Sensitivity of diffusion weighted steady state free precession to anisotropic diffusion

(2008) Jennifer A. McNab et al.   MAGNETIC RESONANCE IN MEDICINE

Axcaliber: A method for measuring axon diameter distribution from diffusion MRI

(2008) Yaniv Assaf et al.   MAGNETIC RESONANCE IN MEDICINE

High-field diffusion MR histology: Image-based correction of eddy-current ghosts in diffusion-weighted rapid acquisition with relaxation enhancement (DW-RARE)

(2008) J. Michael Tyszka et al.   MAGNETIC RESONANCE IN MEDICINE

Diffusion spectrum magnetic resonance imaging (DSI) tractography of crossing fibers

(2008) V.J. Wedeen et al.   NEUROIMAGE

Postmortem interval alters the water relaxation and diffusion properties of rat nervous tissue — Implications for MRI studies of human autopsy samples

(2008) Timothy M. Shepherd et al.   NEUROIMAGE

Simulation and experimental verification of the diffusion in an anisotropic fiber phantom

(2007) Els Fieremans et al.   JOURNAL OF MAGNETIC RESONANCE

High-resolution diffusion tensor imaging and tractography of the human optic chiasm at 9.4 T

(2007) Alard Roebroeck et al.   NEUROIMAGE