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open-source framework for analysis of multidimensional diffusion mri data  (MathWorks Inc)


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    MathWorks Inc open-source framework for analysis of multidimensional diffusion mri data
    Open Source Framework For Analysis Of Multidimensional Diffusion Mri Data, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/diffusion+mri+data/pm35569180-558-1-13
    Average 90 stars, based on 1 article reviews
    open-source framework for analysis of multidimensional diffusion mri data - by Bioz Stars, 2026-10
    90/100 stars

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    Related Articles

    Diffusion-based Assay:

    Article Title: Multi-tissue spherical deconvolution of tensor-valued diffusion MRI.
    Article Snippet: .. An open-source framework for analysis of multidimensional diffusion MRI data implemented in MATLAB. ..

    Article Title: Diffusion tensor imaging predicting neurological repair of spinal cord injury with transplanting collagen/chitosan scaffold binding bFGF.
    Article Snippet: Prognosis and treatment evaluation of spinal cord injury (SCI) are still in the long-term research stage.. Prognostic factors for SCI treatment need effective biomarker to assess therapeutic effect.. Quantitative diffusion tensor imaging (DTI) may become a potential indicators for assessing SCI repair.

    Article Title: Mapping Short Association Fibers in the Early Cortical Visual Processing Stream Using In Vivo Diffusion Tractography
    Article Snippet: .. Analysis of diffusion MRI data was performed using MATLAB version R2017b, MRtrix 3.0 ( ) ( http://www.mrtrix.org/ ), FSL 5.0.9 ( ; ; ), and ANTs 2.2.0 ( ) software packages and the gradunwarp toolbox ( https://github.com/Washington-University/gradunwarp ) , as described below. ..

    Magnetic Resonance Imaging:

    Article Title: Multi-tissue spherical deconvolution of tensor-valued diffusion MRI.
    Article Snippet: .. An open-source framework for analysis of multidimensional diffusion MRI data implemented in MATLAB. ..

    Article Title: Diffusion tensor imaging predicting neurological repair of spinal cord injury with transplanting collagen/chitosan scaffold binding bFGF.
    Article Snippet: Prognosis and treatment evaluation of spinal cord injury (SCI) are still in the long-term research stage.. Prognostic factors for SCI treatment need effective biomarker to assess therapeutic effect.. Quantitative diffusion tensor imaging (DTI) may become a potential indicators for assessing SCI repair.

    Article Title: Mapping Short Association Fibers in the Early Cortical Visual Processing Stream Using In Vivo Diffusion Tractography
    Article Snippet: .. Analysis of diffusion MRI data was performed using MATLAB version R2017b, MRtrix 3.0 ( ) ( http://www.mrtrix.org/ ), FSL 5.0.9 ( ; ; ), and ANTs 2.2.0 ( ) software packages and the gradunwarp toolbox ( https://github.com/Washington-University/gradunwarp ) , as described below. ..

    Software:

    Article Title: Diffusion tensor imaging predicting neurological repair of spinal cord injury with transplanting collagen/chitosan scaffold binding bFGF.
    Article Snippet: Prognosis and treatment evaluation of spinal cord injury (SCI) are still in the long-term research stage.. Prognostic factors for SCI treatment need effective biomarker to assess therapeutic effect.. Quantitative diffusion tensor imaging (DTI) may become a potential indicators for assessing SCI repair.

    Article Title: Mapping Short Association Fibers in the Early Cortical Visual Processing Stream Using In Vivo Diffusion Tractography
    Article Snippet: .. Analysis of diffusion MRI data was performed using MATLAB version R2017b, MRtrix 3.0 ( ) ( http://www.mrtrix.org/ ), FSL 5.0.9 ( ; ; ), and ANTs 2.2.0 ( ) software packages and the gradunwarp toolbox ( https://github.com/Washington-University/gradunwarp ) , as described below. ..

    other:

    Article Title: Longitudinal Study of Irradiation-Induced Brain Microstructural Alterations With S-Index, a Diffusion MRI Biomarker, and MR Spectroscopy.
    Article Snippet: Diffusion MRI data were processed using homemade software implemented with MATLAB (The MathWorks, Natick, MA).

    Article Title: Diffusion MRI simulation of realistic neurons with SpinDoctor and the Neuron Module.
    Article Snippet: We presented the Neuron Module that we implemented in the Matlab-based diffusion MRI simulation toolbox SpinDoctor.



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    Image Search Results


    Example diffusion MRI reconstruction and tracking results. (A) The unprecedented data quality with ultra-high resolution allows for mapping the structural connectivity of the chimpanzee brain (wild, female, 6 years) with high precision. The images shows slices of the color coded fractional anisotropy computed from the measurement (color coding of main diffusion direction: red—left right, green—superior inferior, blue – anterior posterior). (B) The high-resolution dMRI data enables tractography on fine spatial scales in the same chimpanzee brain. Three respective tract reconstructions are depicted: Inferior Fronto-Occipital Fasciculus, IFOF (green); Corticospinal tract (blue); Cingulum (turquoise). The three depicted tracts were selected as examples for this illustration due to their well-known morphology in humans.

    Journal: Frontiers in Integrative Neuroscience

    Article Title: Brain structure and function: a multidisciplinary pipeline to study hominoid brain evolution

    doi: 10.3389/fnint.2023.1299087

    Figure Lengend Snippet: Example diffusion MRI reconstruction and tracking results. (A) The unprecedented data quality with ultra-high resolution allows for mapping the structural connectivity of the chimpanzee brain (wild, female, 6 years) with high precision. The images shows slices of the color coded fractional anisotropy computed from the measurement (color coding of main diffusion direction: red—left right, green—superior inferior, blue – anterior posterior). (B) The high-resolution dMRI data enables tractography on fine spatial scales in the same chimpanzee brain. Three respective tract reconstructions are depicted: Inferior Fronto-Occipital Fasciculus, IFOF (green); Corticospinal tract (blue); Cingulum (turquoise). The three depicted tracts were selected as examples for this illustration due to their well-known morphology in humans.

    Article Snippet: Here, whole-brain diffusion MRI data (dMRI) were acquired on a preclinical Bruker Biospec 94/30 MRI system at 9.4 T (Software Version Paravision 6.0.1), using a 300 mT/m gradient system and a 154 mm transmit-receive quadrature RF coil (Bruker BioSpin, Ettlingen, Germany).

    Techniques: Diffusion-based Assay

    Microstructural mapping of a chimpanzee brain using quantitative MRI. (A) The quantitative MRI parameters R1, R2*, MT sat and PD acquired at 7 T and ultra-high resolution are shown for the same axial slice of one post mortem chimpanzee brain (wild, male, 45 years.). All parameters show exquisite contrast between gray and white matter and are sensitive biomarkers of brain tissue microstructure including brain myelination and brain iron content. (B) The high resolution multimodal maps allow for comprehensive characterization of brain anatomy resolving smallest neuroanatomical features including (i) layers within the cortex (arrow indicates the highly myelinated Stria of Gennari in the primary visual cortex in the lunate sulcus), (ii) thin gray matter structures such as the claustrum, (iii) substructures within the hippocampus and (iv) iron accumulation in subcortical structures. (C) Whole brain quantitative MRI maps allow for mapping of myeloarchitecture across the entire brain facilitating quantitative comparison of brain organization across species. R1 sampled at middle cortical depth and mapped across the neocortex for (bottom panel) one post mortem chimpanzee brain (captive, female, 44 years.) reflect different myelination of brain areas (highly myelinated motor, sensory and auditory cortex indicated with arrows) and can be compared with the same metric obtained in (right panel) humans in vivo . Note that absolute R1 values are larger due to fixation of the post mortem brain tissue compared to in vivo .

    Journal: Frontiers in Integrative Neuroscience

    Article Title: Brain structure and function: a multidisciplinary pipeline to study hominoid brain evolution

    doi: 10.3389/fnint.2023.1299087

    Figure Lengend Snippet: Microstructural mapping of a chimpanzee brain using quantitative MRI. (A) The quantitative MRI parameters R1, R2*, MT sat and PD acquired at 7 T and ultra-high resolution are shown for the same axial slice of one post mortem chimpanzee brain (wild, male, 45 years.). All parameters show exquisite contrast between gray and white matter and are sensitive biomarkers of brain tissue microstructure including brain myelination and brain iron content. (B) The high resolution multimodal maps allow for comprehensive characterization of brain anatomy resolving smallest neuroanatomical features including (i) layers within the cortex (arrow indicates the highly myelinated Stria of Gennari in the primary visual cortex in the lunate sulcus), (ii) thin gray matter structures such as the claustrum, (iii) substructures within the hippocampus and (iv) iron accumulation in subcortical structures. (C) Whole brain quantitative MRI maps allow for mapping of myeloarchitecture across the entire brain facilitating quantitative comparison of brain organization across species. R1 sampled at middle cortical depth and mapped across the neocortex for (bottom panel) one post mortem chimpanzee brain (captive, female, 44 years.) reflect different myelination of brain areas (highly myelinated motor, sensory and auditory cortex indicated with arrows) and can be compared with the same metric obtained in (right panel) humans in vivo . Note that absolute R1 values are larger due to fixation of the post mortem brain tissue compared to in vivo .

    Article Snippet: Here, whole-brain diffusion MRI data (dMRI) were acquired on a preclinical Bruker Biospec 94/30 MRI system at 9.4 T (Software Version Paravision 6.0.1), using a 300 mT/m gradient system and a 154 mm transmit-receive quadrature RF coil (Bruker BioSpin, Ettlingen, Germany).

    Techniques: Comparison, In Vivo