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Atlas-Guided Global Tractography: Imposing a Prior on the Local Track Orientation [chapter]

Daan Christiaens, Marco Reisert, Thijs Dhollander, Frederik Maes, Stefan Sunaert, Paul Suetens
2014 Mathematics and Visualization  
Since its introduction over a decade ago, diffusion tractography has come a long way from local, deterministic methods, over probabilistic approaches, towards global tractography.  ...  We conclude that atlas-guided global tractography can improve the fibre reconstruction and ultimately detect and quantify inter-subject differences in tractography.  ...  We expect this atlas to guide the global tractography towards a more targeted reconstruction, due to its higher angular contrast.  ... 
doi:10.1007/978-3-319-11182-7_11 fatcat:jkimiuovijbwrdlv4aptpd52pm

The DTI Challenge: Toward Standardized Evaluation of Diffusion Tensor Imaging Tractography for Neurosurgery

Sonia Pujol, William Wells, Carlo Pierpaoli, Caroline Brun, James Gee, Guang Cheng, Baba Vemuri, Olivier Commowick, Sylvain Prima, Aymeric Stamm, Maged Goubran, Ali Khan (+17 others)
2015 Journal of Neuroimaging  
Tractography methods included deterministic, probabilistic, filtered, and global approaches.  ...  RESULTS: The evaluation of tractography reconstructions showed a great interalgorithm variability.  ...  This study is intended to serve as a first step toward the standardized evaluation of DTI tractography algorithms and, as a community-building effort, to address the highly multidisciplinary aspect of  ... 
doi:10.1111/jon.12283 pmid:26259925 pmcid:PMC4641305 fatcat:kd4sj6sqtfee3gsz3fk7aljxqe

Validation of tractography: Comparison with manganese tracing

Thomas R. Knösche, Alfred Anwander, Matthew Liptrot, Tim B. Dyrby
2015 Human Brain Mapping  
Tracing r r 4117 r r Validation of Tractography With Manganese Tracing r r 4119 r r Validation of Tractography With Manganese Tracing r r 4123 r r Validation of Tractography With Manganese Tracing r r  ...  4125 r r Validation of Tractography With Manganese Tracing r r 4131 r  ...  Global Voxel-Wise Assessment To evaluate the global agreement between manganese tracing and tractography, we computed a number of measures which were based on the assumption that manganese represents the  ... 
doi:10.1002/hbm.22902 pmid:26178765 pmcid:PMC5034837 fatcat:cqxoqy2owvdffgojx77fdq2qmm

Quantitative Diffusion Tensor Imaging Tractography Metrics are Associated with Cognitive Performance Among HIV-Infected Patients

David F. Tate, Jared Conley, Robert H. Paul, Kathryn Coop, Song Zhang, Wenjin Zhou, David H. Laidlaw, Lynn E. Taylor, Timothy Flanigan, Bradford Navia, Ronald Cohen, Karen Tashima
2010 Brain Imaging and Behavior  
We examined five different tractography metrics obtained from global tractography maps (global tractography FA, average tube length, normalized number of streamtubes, normalized weighted streamtube length  ...  The results demonstrated a significant difference between the groups for global tractography FA (t=2.13, p= 0.04), but not for any of the other tractography metrics examined (p-value range=0.39 to 0.95  ...  However, global tractography FA was also related to many cognitive tests.  ... 
doi:10.1007/s11682-009-9086-z pmid:20503115 pmcid:PMC2909656 fatcat:cto4fifvdnhk5mpcrfpw6llemu

Diffusion MRI-based cortical connectome reconstruction: dependency on tractography procedures and neuroanatomical characteristics

Michel R. T. Sinke, Willem M. Otte, Daan Christiaens, Oliver Schmitt, Alexander Leemans, Annette van der Toorn, R. Angela Sarabdjitsingh, Marian Joëls, Rick M. Dijkhuizen
2018 Brain Structure and Function  
Our study aimed to determine the accuracy of connectome reconstruction for three dMRI-based tractography approaches: diffusion tensor (DT)-based, CSD-based and global tractography.  ...  Despite the potential of CSD-based and global tractography to handle complex fiber orientations at voxel level, reconstruction accuracy, especially for longdistance connections, remains a challenge.  ...  ., at a connection potential of 0.1) for global tractography.  ... 
doi:10.1007/s00429-018-1628-y pmid:29464318 pmcid:PMC5968063 fatcat:fvxvdtmpcjbv7odtewgx2phfja

A Novel Global Tractography Algorithm Based on an Adaptive Spin Glass Model [chapter]

Pierre Fillard, Cyril Poupon, Jean-François Mangin
2009 Lecture Notes in Computer Science  
This paper introduces a novel framework for global diffusion MRI tractography inspired from a spin glass model. The entire white matter fascicle map is parameterized by pieces of fibers called spins.  ...  Recently, global alternatives to tractography were developed [4, 5] .  ...  In this work, we propose a novel framework for global tractography which is a complete overhaul of the spin glass model introduced in [6] 1 .  ... 
doi:10.1007/978-3-642-04268-3_114 fatcat:o36y43tkqfay7o4fsamxui3ssi

Global tractography of multi-shell diffusion-weighted imaging data using a multi-tissue model

Daan Christiaens, Marco Reisert, Thijs Dhollander, Stefan Sunaert, Paul Suetens, Frederik Maes
2015 NeuroImage  
Global tractography methods aim at reconstructing the full-brain fibre configuration that best explains the measured data, based on a generative signal model.  ...  In this work, we incorporate a multi-shell multi-tissue model based on spherical convolution, into a global tractography framework, which allows to deal with partial volume effects.  ...  of MITK global tractography and MSMT-CSD.  ... 
doi:10.1016/j.neuroimage.2015.08.008 pmid:26272729 fatcat:3wh7vdpsrjhdphnitmzpw2aoge

Quantitative assessment of a framework for creating anatomical brain networks via global tractography

Longchuan Li, James K. Rilling, Todd M. Preuss, Matthew F. Glasser, Frederick W. Damen, Xiaoping Hu
2012 NeuroImage  
Our results demonstrated that global tractography accurately characterized the phantom network in terms of graph-theoretic measures, and significantly outperformed the local tracking approach.  ...  Here we systematically evaluated a newly introduced tracking algorithm, global tractography, to derive anatomical brain networks in a fiber phantom, 2 post-mortem macaque brains, and 20 living humans,  ...  Two kinds of diffusion tractography algorithms can be used for creating anatomical brain networks: local and global tractography.  ... 
doi:10.1016/j.neuroimage.2012.03.071 pmid:22484406 pmcid:PMC3407566 fatcat:276hxq4rj5fj7hbiorot5huxim

Seeing More by Showing Less: Orientation-Dependent Transparency Rendering for Fiber Tractography Visualization

Chantal M. W. Tax, Maxime Chamberland, Marijn van Stralen, Max A. Viergever, Kevin Whittingstall, David Fortin, Maxime Descoteaux, Alexander Leemans, Mojgan Hodaie
2015 PLoS ONE  
More specifically, pathways that are oriented (locally or globally) along a user-specified opacity axis can be made more transparent or opaque.  ...  Fiber tractography plays an important role in exploring the architectural organization of fiber trajectories, both in fundamental neuroscience and in clinical applications.  ...  By interactively switching between local and global transparency rendering, the different methods for global streamline Orientation-Dependent Transparency Rendering for Fiber Tractography Fig 9.  ... 
doi:10.1371/journal.pone.0139434 pmid:26444010 pmcid:PMC4596805 fatcat:qehxulypirhc7ikwigci3xmqfq

Addressing the Path-Length-Dependency Confound in White Matter Tract Segmentation

Matthew G. Liptrot, Karam Sidaros, Tim B. Dyrby, Christophe Lenglet
2014 PLoS ONE  
Tract networks segmented with ICE-T can subsequently be delineated with a global threshold, even from a single-voxel seed.  ...  ICE-T is an easy-to-implement framework that acts as a wrapper around most probabilistic streamline tractography methods, iteratively growing the tractography seed regions.  ...  towards the projection site, indicating the presence of PLD.  ... 
doi:10.1371/journal.pone.0096247 pmid:24797510 pmcid:PMC4010423 fatcat:sgf7mz7fqfdpdeflqhkozzlgku

Processing and Visualization of Diffusion MRI [chapter]

James G. Malcolm, Yogesh Rathi, Carl-Fredrik Westin
2010 Biomedical Image Processing  
We then look at techniques to trace out neural pathways and infer global tissue structure.  ...  We also documented the recent trend toward global approaches, those that combine local voxel-to-voxel tracing with a sense of the full path [43, 109] .  ...  In some respects, probabilistic tractography can be seen to take into account more global information.  ... 
doi:10.1007/978-3-642-15816-2_16 fatcat:uqcj676gbzc3fkqlk6vwep3mfm

Riemann-DTI Geodesic Tractography Revisited [chapter]

Luc Florack, Rick Sengers, Stephan Meesters, Lars Smolders, Andrea Fuster
2021 Mathematics and Visualization  
We propose a new geodesic paradigm that appears to overcome these problems, making a step towards semi-automatic clinical use.  ...  AbstractClinical tractography is a challenging problem in diffusion tensor imaging (DTI) due to persistent validation issues.  ...  Using the scaled length g ε in the denominator would entail a bias towards ε = 1.  ... 
doi:10.1007/978-3-030-56215-1_11 fatcat:t5m7bzragvdnzhmgqrepyxa6oq

Active delineation of Meyer's loop using oriented priors through MAGNEtic tractography (MAGNET)

Maxime Chamberland, Benoit Scherrer, Sanjay P. Prabhu, Joseph Madsen, David Fortin, Kevin Whittingstall, Maxime Descoteaux, Simon K. Warfield
2016 Human Brain Mapping  
To prevent such impairment, achieving an accurate delineation of Meyer's loop with tractography is thus of utmost importance.  ...  Streamline tractography algorithms infer connectivity from diffusion MRI (dMRI) by following diffusion directions which are similarly aligned between neighbouring voxels.  ...  Other techniques have explored the possibility to infer brain connectivity using global approaches (i.e. global tractography) (O'Donnell et al., 2002; Reisert et al., 2011; Neher et al., 2012) , which  ... 
doi:10.1002/hbm.23399 pmid:27647682 pmcid:PMC5333642 fatcat:7wclydvckveu5mtq5ldjem3gm4

Interactive Computation and Visualization of Structural Connectomes in Real-Time [chapter]

Maxime Chamberland, William Gray, Maxime Descoteaux, Derek K. Jones
2017 Lecture Notes in Computer Science  
As a result, it can be nonintuitive to grasp the contribution of each edge within a graph, both at a local and global scale.  ...  Here, we introduce a new platform that enables tractography-based networks to be explored in a highly interactive real-time fashion.  ...  A transfer function is responsible for mapping values of M towards edge thickness and opacity.  ... 
doi:10.1007/978-3-319-67159-8_5 fatcat:vzqj6nrcdndr5kljegjgqhdita

Clinical Factors Associated with Microstructural Connectome Related Brain Dysmaturation in Term Neonates with Congenital Heart Disease [article]

Jodie K Votava-Smith, Jenna Gaesser, Anna Lonyai Harbison, Vince Lee, Nhu Tran, Vidya Rajagopalan, Sylvia del Castillo, Ram Kumar Subramanyan, Elizabeth Herrup, Tracy Baust, Jennifer A Johnson, George C Gabriel (+7 others)
2022 medRxiv   pre-print
The outcomes included (1) connectome metrics: cost and global/nodal efficiency (2) seed-based tractography: fractional anisotropy.  ...  Seed- based tractography was performed in parallel.  ...  Of note, the "number of tracts" approach likely also weights towards total white matter volume.  ... 
doi:10.1101/2022.05.26.22275651 fatcat:k7v2zfruszednk3qcgti4o6vmi
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