Modified Linear Fascicle Evaluation (mLiFE) for Improving the Fiber Tractography of Stroke Patients using Diffusion MRI

Author(s):  
Yujia Li ◽  
Yunxiang Ge ◽  
Weibei Dou ◽  
Guangzhu Zhang
2020 ◽  
Author(s):  
Colin B Hansen ◽  
Qi Yang ◽  
Ilwoo Lyu ◽  
Francois Rheault ◽  
Cailey Kerley ◽  
...  

2021 ◽  
Author(s):  
Kurt Schilling ◽  
Chantal M.W. Tax ◽  
Francois M.W. Rheault ◽  
Bennett A Landman ◽  
Adam W Anderson ◽  
...  

Characterizing and understanding the limitations of diffusion MRI fiber tractography is a prerequisite for methodological advances and innovations which will allow these techniques to accurately map the connections of the human brain. The so-called "crossing fiber problem" has received tremendous attention and has continuously triggered the community to develop novel approaches for disentangling distinctly oriented fiber populations. Perhaps an even greater challenge occurs when multiple white matter bundles converge within a single voxel, or throughout a single brain region, and share the same parallel orientation, before diverging and continuing towards their final cortical or sub-cortical terminations. These so-called "bottleneck" regions contribute to the ill-posed nature of the tractography process, and lead to both false positive and false negative estimated connections. Yet, as opposed to the extent of crossing fibers, a thorough characterization of bottleneck regions has not been performed. The aim of this study is to quantify the prevalence of bottleneck regions. To do this, we use diffusion tractography to segment known white matter bundles of the brain, and assign each bundle to voxels they pass through and to specific orientations within those voxels (i.e. fixels). We demonstrate that bottlenecks occur in greater than 50-70% of fixels in the white matter of the human brain. We find that all projection, association, and commissural fibers contribute to, and are affected by, this phenomenon, and show that even regions traditionally considered "single fiber voxels" often contain multiple fiber populations. Together, this study shows that a majority of white matter presents bottlenecks for tractography which may lead to incorrect or erroneous estimates of brain connectivity or quantitative tractography (i.e., tractometry), and underscores the need for a paradigm shift in the process of tractography and bundle segmentation for studying the fiber pathways of the human brain.


2020 ◽  
Author(s):  
Colin B Hansen ◽  
Qi Yang ◽  
Ilwoo Lyu ◽  
Francois Rheault ◽  
Cailey Kerley ◽  
...  

AbstractBrain atlases have proven to be valuable neuroscience tools for localizing regions of interest and performing statistical inferences on populations. Although many human brain atlases exist, most do not contain information about white matter structures, often neglecting them completely or labelling all white matter as a single homogenous substrate. While few white matter atlases do exist based on diffusion MRI fiber tractography, they are often limited to descriptions of white matter as spatially separate “regions” rather than as white matter “bundles” or fascicles, which are well-known to overlap throughout the brain. Additional limitations include small sample sizes, few white matter pathways, and the use of outdated diffusion models and techniques. Here, we present a new population-based collection of white matter atlases represented in both volumetric and surface coordinates in a standard space. These atlases are based on 2443 subjects, and include 216 white matter bundles derived from 6 different state-of-the-art tractography techniques. This atlas is freely available and will be a useful resource for parcellation and segmentation.


2018 ◽  
Vol 48 (4) ◽  
pp. 951-963 ◽  
Author(s):  
Wieke Haakma ◽  
Jeroen Hendrikse ◽  
Lars Uhrenholt ◽  
Alexander Leemans ◽  
Lene Warner Thorup Boel ◽  
...  

2017 ◽  
Vol 32 (4) ◽  
pp. e3785 ◽  
Author(s):  
Ben Jeurissen ◽  
Maxime Descoteaux ◽  
Susumu Mori ◽  
Alexander Leemans

2019 ◽  
Vol 40 (3) ◽  
pp. 611-621 ◽  
Author(s):  
Bastian Cheng ◽  
Philipp Dietzmann ◽  
Robert Schulz ◽  
Marlene Boenstrup ◽  
Lutz Krawinkel ◽  
...  

Following acute ischemic stroke, isolated subcortical lesions induce gray matter atrophy in anatomically connected, yet distant cortical brain regions. We expand on previous studies by analyzing cortical thinning in contralesional, homologous regions indirectly linked to primary stroke lesions via ipsilesional cortical areas. For this purpose, stroke patients were serially studied by magnetic resonance imaging (diffusion tensor imaging and high-resolution anatomical imaging) in the acute (days 3–5) and late chronic stage one year after stroke. We analyzed changes of gray and white matter integrity in 18 stroke patients (median age 68 years) with subcortical stroke. We applied probabilistic fiber tractography to identify brain regions connected to stroke lesions and contralesional homologous areas. Cortical thickness was quantified by semi-automatic measurements, and fractional anisotropy was analyzed. One year after stroke, significant decrease of cortical thickness was detected in areas connected to ischemic lesions (mean −0.15 mm; 95% CI −0.23 to −0.07 mm) as well as homologous contralateral brain regions (mean −0.13 mm; 95% CI −0.07 to −0.19 mm). We detected reduced white matter integrity of inter- and intrahemispheric fiber tracts. There were no significant associations with clinical recovery. Our results indicate that impact of subcortical lesions extends to homologous brain areas via transcallosal diaschisis.


2017 ◽  
Vol 39 (3) ◽  
pp. 1449-1466 ◽  
Author(s):  
Kurt Schilling ◽  
Yurui Gao ◽  
Vaibhav Janve ◽  
Iwona Stepniewska ◽  
Bennett A. Landman ◽  
...  

Author(s):  
Kurt G. Schilling ◽  
François Rheault ◽  
Laurent Petit ◽  
Colin B. Hansen ◽  
Vishwesh Nath ◽  
...  

AbstractWhite matter bundle segmentation using diffusion MRI fiber tractography has become the method of choice to identify white matter fiber pathways in vivo in human brains. However, like other analyses of complex data, there is considerable variability in segmentation protocols and techniques. This can result in different reconstructions of the same intended white matter pathways, which directly affects tractography results, quantification, and interpretation. In this study, we aim to evaluate and quantify the variability that arises from different protocols for bundle segmentation. Through an open call to users of fiber tractography, including anatomists, clinicians, and algorithm developers, 42 independent teams were given processed sets of human wholebrain streamlines and asked to segment 14 white matter fascicles on six subjects. In total, we received 57 different bundle segmentation protocols, which enabled detailed volume-based and streamline-based analyses of agreement and disagreement among protocols for each fiber pathway. Results show that even when given the exact same sets of underlying streamlines, the variability across protocols for bundle segmentation is greater than all other sources of variability in the virtual dissection process, including variability within protocols and variability across subjects. In order to foster the use of tractography bundle dissection in routine clinical settings, and as a fundamental analytical tool, future endeavors must aim to resolve and reduce this heterogeneity. Although external validation is needed to verify the anatomical accuracy of bundle dissections, reducing heterogeneity is a step towards reproducible research and may be achieved through the use of standard nomenclature and definitions of white matter bundles and well-chosen constraints and decisions in the dissection process.


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