Machine Learning for Predicting Individual Severity of Blepharospasm Using Diffusion Tensor Imaging.
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ABSTRACT:
SUBMITTER: Liu G
PROVIDER: S-EPMC8155629 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:IntroductionSupport vector machines (SVM) have recently been demonstrated to be useful for voxel-based MR image classification. In the present study we sought to evaluate whether this method is feasible in the classification of childhood epilepsy intractability based on diffusion tensor imaging (DTI), with adequate accuracy. We applied SVM in conjunction DTI indices of fractional anisotropy (FA), mean diffusivity (MD), radial diffusivity (RD) and axial diffusivity (AD). DTI studies have reported white matter abnormalities in childhood-onset epilepsy, but the mechanisms underlying these abnormalities are not well understood. The aim of this study was to examine the relationship between epileptic seizures and cerebral white matter abnormalities identified by DTI in children with active compared to remitted epilepsy utilizing an automated and unsupervised classification method.MethodsThe DTI data were tensor-derived indices including FA, MD, AD and RD in 49 participants including 20 children with epilepsy 5-6 years after seizure onset as compared to healthy controls. To determine whether there was normalization of white matter diffusion behavior following cessation of seizures and treatment, the epilepsy subjects were grouped into those with active versus remitted epilepsy. Group comparisons were previously made examining FA, MD and RD via whole-brain tract-based spatial statistics (TBSS). The SVM analysis was undertaken with the WEKA software package with 10-fold cross validation. Weighted sensitivity, specificity and accuracy were measured for all the DTI indices for two classifications: (1) controls vs. all children with epilepsy and (2) controls vs. children with remitted epilepsy vs. children with active epilepsy.ResultsUsing TBSS, significant differences were identified between controls and all children with epilepsy, between controls and children with active epilepsy, and also between the active and remitted epilepsy groups. There were no significant differences between the remitted epilepsy and controls on any DTI measure. In the SVM analysis, the best predictor between controls and all children with epilepsy was MD, with a sensitivity of 90-100% and a specificity between 96.6 and 100%. For the three-way classification, the best results were for FA with 100% sensitivity and specificity.ConclusionDTI-based SVM classification appears promising for distinguishing children with active epilepsy from either those with remitted epilepsy or controls, and the question that arises is whether it will prove useful as a prognostic index of seizure remission. While SVM can correctly identify children with active epilepsy from other groups' diagnosis, further research is needed to determine the efficacy of SVM as a prognostic tool in longitudinal clinical studies.
| S-EPMC4053650 | biostudies-literature
Project description:Chromosome 22q11.2 deletion syndrome (22q11.2DS) is a genetic neurodevelopmental syndrome that has been studied intensively in order to understand relationships between the genetic microdeletion, brain development, cognitive function, and the emergence of psychiatric symptoms. White matter microstructural abnormalities identified using diffusion tensor imaging methods have been reported to affect a variety of neuroanatomical tracts in 22q11.2DS. In the present study, we sought to combine two discovery-based approaches: (1) white matter query language was used to parcellate the brain's white matter into tracts connecting pairs of 34, bilateral cortical regions and (2) the diffusion imaging characteristics of the resulting tracts were analyzed using a machine-learning method called support vector machine in order to optimize the selection of a set of imaging features that maximally discriminated 22q11.2DS and comparison subjects. With this unique approach, we both confirmed previously-recognized 22q11.2DS-related abnormalities in the inferior longitudinal fasciculus (ILF), and identified, for the first time, 22q11.2DS-related anomalies in the middle longitudinal fascicle and the extreme capsule, which may have been overlooked in previous, hypothesis-guided studies. We further observed that, in participants with 22q11.2DS, ILF metrics were significantly associated with positive prodromal symptoms of psychosis.
| S-EPMC5522376 | biostudies-literature
Project description:Background and purposeBrain MR imaging is routinely performed in the work-up of suspected PD, yet its role is essentially limited to the exclusion of other pathologies. We performed a pattern-recognition analysis based on DTI data to detect subjects with PD at the individual level.Materials and methodsWe included 40 consecutive patients with Parkinsonism suggestive of PD who had DTI at 3T, brain (123)I ioflupane SPECT (DaTSCAN), and extensive neurologic testing including follow-up (17 PD: age range, 67.8 ± 6.7 years; 9 women; 23 Other: consisting of atypical forms of Parkinsonism; age range, 67.2 ± 9.7 years; 7 women). Data analysis included group-level TBSS and individual-level SVM classification.ResultsAt the group level, patients with PD versus Other had spatially consistent increase in FA and decrease in RD and MD in a bilateral network, predominantly in the right frontal white matter. At the individual level, SVM correctly classified patients with PD at the individual level with accuracies up to 97%.ConclusionsSupport vector machine-based pattern recognition of DTI data provides highly accurate detection of patients with PD among those with suspected PD at an individual level, which is potentially clinically applicable. Because most suspected subjects with PD undergo brain MR imaging, already existing MR imaging data may be reused; this practice is very cost-efficient.
| S-EPMC7965604 | biostudies-literature
Project description:Electrophysiological and neuroimaging studies suggest that the integrity of ipsilesional and inter-hemispheric motor circuits is important for motor recovery after stroke. However, the extent to which each of these tracts contributes to the variance in outcome remains unclear. We examined whether diffusion tensor imaging (DTI)-derived measures of corticospinal and transcallosal tracts predict motor improvement in an experimental neurorehabilitation trial. 15 chronic stroke patients received bihemispheric transcranial direct current stimulation and simultaneous physical/occupational therapy for five consecutive days. Motor impairment was assessed prior to and after the intervention. At baseline, the patients underwent DTI; probabilistic fiber tracking was used to reconstruct the pyramidal tract (PT), alternate descending motor fibers (aMF), and transcallosal fibers connecting primary motor cortices (M1-M1). Ipsilesional corticospinal tracts (PT, aMF) and M1-M1 showed significantly decreased fractional anisotropy (FA) and increased directional diffusivities when compared to age-matched healthy controls. Partial correlations revealed that greater gains in motor function were related to higher FA values and lower directional diffusivities of transcallosal and ipsilesional corticospinal tracts. M1-M1 diffusivity had the greatest predictive value. An additional slice-by-slice analysis of FA values along the corticospinal tracts demonstrated that the more the ipsilesional FA profiles of patients resembled those of healthy controls, the greater their functional improvement. In conclusion, our study shows that DTI-derived measures can be used to predict functional potential for subsequent motor recovery in chronic stroke patients. Diffusivity parameters of individual tracts and tract combinations may help in assessing a patient's individual recovery potential and in determining optimal neurorehabilitative interventions.
| S-EPMC3175010 | biostudies-literature
Project description:Diffusion tensor magnetic resonance imaging (DTI) is unsurpassed in its ability to map tissue microstructure and structural connectivity in the living human brain. Nonetheless, the angular sampling requirement for DTI leads to long scan times and poses a critical barrier to performing high-quality DTI in routine clinical practice and large-scale research studies. In this work we present a new processing framework for DTI entitled DeepDTI that minimizes the data requirement of DTI to six diffusion-weighted images (DWIs) required by conventional voxel-wise fitting methods for deriving the six unique unknowns in a diffusion tensor using data-driven supervised deep learning. DeepDTI maps the input non-diffusion-weighted (b = 0) image and six DWI volumes sampled along optimized diffusion-encoding directions, along with T1-weighted and T2-weighted image volumes, to the residuals between the input and high-quality output b = 0 image and DWI volumes using a 10-layer three-dimensional convolutional neural network (CNN). The inputs and outputs of DeepDTI are uniquely formulated, which not only enables residual learning to boost CNN performance but also enables tensor fitting of resultant high-quality DWIs to generate orientational DTI metrics for tractography. The very deep CNN used by DeepDTI leverages the redundancy in local and non-local spatial information and across diffusion-encoding directions and image contrasts in the data. The performance of DeepDTI was systematically quantified in terms of the quality of the output images, DTI metrics, DTI-based tractography and tract-specific analysis results. We demonstrate rotationally-invariant and robust estimation of DTI metrics from DeepDTI that are comparable to those obtained with two b = 0 images and 21 DWIs for the primary eigenvector derived from DTI and two b = 0 images and 26-30 DWIs for various scalar metrics derived from DTI, achieving 3.3-4.6 × acceleration, and twice as good as those of a state-of-the-art denoising algorithm at the group level. The twenty major white-matter tracts can be accurately identified from the tractography of DeepDTI results. The mean distance between the core of the major white-matter tracts identified from DeepDTI results and those from the ground-truth results using 18 b = 0 images and 90 DWIs measures around 1-1.5 mm. DeepDTI leverages domain knowledge of diffusion MRI physics and power of deep learning to render DTI, DTI-based tractography, major white-matter tracts identification and tract-specific analysis more feasible for a wider range of neuroscientific and clinical studies.
| S-EPMC7646449 | biostudies-literature
Project description:Distinct missense mutations in a specific gene have been associated with different diseases as well as differing severity of a disease. Current computational methods predict the potential pathogenicity of a missense variant but fail to differentiate between separate disease or severity phenotypes. We have developed a method to overcome this limitation by applying machine learning to features extracted from molecular dynamics simulations, creating a way to predict the effect of novel genetic variants in causing a disease, drug resistance, or another specific trait. As an example, we have applied this novel approach to variants in calmodulin associated with two distinct arrhythmias as well as two different neurodegenerative diseases caused by variants in amyloid-β peptide. The new method successfully predicts the specific disease caused by a gene variant and ranks its severity with more accuracy than existing methods. We call this method molecular dynamics phenotype prediction model.
| S-EPMC7840418 | biostudies-literature
Project description:IntroductionEpilepsy is a serious hazard to human health. Minimally invasive surgery is an extremely effective treatment to refractory epilepsy currently if the location of epileptic foci is given. However, it is challenging to locate the epileptic foci since a multitude of patients are MRI-negative. It is well known that DKI (diffusion kurtosis imaging) can analyze the pathological changes of local tissues and other regions of epileptic foci at the molecular level. In this article, we propose a new localization way for epileptic foci based on machine-learning method with kurtosis tensor in DKI.MethodsWe recruited 59 children with hippocampus epilepsy and 70 age- and sex-matched normal controls; their T1-weighted images and DKI were collected simultaneously. Then, the hippocampus in DKI is segmented based on a mask as a local brain region, and DKE is utilized to estimate the kurtosis tensor of each subject's hippocampus. Finally, the kurtosis tensor is fed into SVM (support vector machine) to identify epilepsy.ResultsThe classifier produced 95.24% accuracy for patient versus normal controls, which is higher than that obtained with FA (fractional anisotropy) and MK (mean kurtosis). Experimental results show that the kurtosis tensor is a kind of remarkable feature to identify epilepsy, which indicates that DKI images can act as an important biomarker for epilepsy from the view of clinical diagnosis.ConclusionAlthough the classification task for epileptic patients and normal controls discussed in this article did not directly achieve the location of epileptic foci and only identified epilepsy on certain brain region, the epileptic foci can be located with the results of identifying results on other brain regions.
| S-EPMC8841295 | biostudies-literature
Project description:Recent neuroimaging studies in OCD have reported structural alterations in the brain, not limited to frontostriatal regions. While Diffusion Tensor Imaging (DTI) is typically used to interrogate WM microstructure in OCD, additional imaging metric, such as Magnetization Transfer Imaging (MTI), allows for further identification of subtle but important structural changes across both GM and WM. In this study, both MTI and DTI were utilised to investigate the structural integrity of the brain, in OCD in relation to healthy controls. 38 adult OCD patients were recruited, along with 41 age- and gender-matched controls. Structural T1, MTI and DTI data were collected. Case-control differences in Magnetization Transfer Ratio (MTR) and DTI metrics (FA, MD) were examined, along with MTR/DTI-related associations with symptom severity in patients. No significant group differences were found across MTR, FA, and MD. However, OCD symptom severity was positively correlated with MTR in a distributed network of brain regions, including the striatum, cingulate, orbitofrontal area and insula. Within the same regions, OCD symptoms were also positively correlated with FA in WM, and negatively correlated with MD in GM. These results indicate a greater degree of myelination in certain cortical and subcortical regions in the more severe cases of OCD.
| S-EPMC7100004 | biostudies-literature
Project description:Therapeutic trials of disease-modifying agents in neurodegenerative disease typically require several hundred participants and long durations for clinical endpoints. Trials of this size are not feasible for prion diseases, rare dementia disorders associated with misfolding of prion protein. In this situation, biomarkers are particularly helpful. On diagnostic imaging, prion diseases demonstrate characteristic brain signal abnormalities on diffusion-weighted MRI. The aim of this study was to determine whether cerebral water diffusivity could be a quantitative imaging biomarker of disease severity. We hypothesized that the basal ganglia were most likely to demonstrate functionally relevant changes in diffusivity. Seventy-one subjects (37 patients and 34 controls) of whom 47 underwent serial scanning (23 patients and 24 controls) were recruited as part of the UK National Prion Monitoring Cohort. All patients underwent neurological assessment with the Medical Research Council Scale, a functionally orientated measure of prion disease severity, and diffusion tensor imaging. Voxel-based morphometry, voxel-based analysis of diffusion tensor imaging and regions of interest analyses were performed. A significant voxel-wise correlation of decreased Medical Research Council Scale score and decreased mean, radial and axial diffusivities in the putamen bilaterally was observed (P < 0.01). Significant decrease in putamen mean, radial and axial diffusivities over time was observed for patients compared with controls (P = 0.01), and there was a significant correlation between monthly decrease in putamen mean, radial and axial diffusivities and monthly decrease in Medical Research Council Scale (P < 0.001). Step-wise linear regression analysis, with dependent variable decline in Medical Research Council Scale, and covariates age and disease duration, showed the rate of decrease in putamen radial diffusivity to be the strongest predictor of rate of decrease in Medical Research Council Scale (P < 0.001). Sample size calculations estimated that, for an intervention study, 83 randomized patients would be required to provide 80% power to detect a 75% amelioration of decline in putamen radial diffusivity. Putamen radial diffusivity has potential as a secondary outcome measure biomarker in future therapeutic trials in human prion diseases.
| S-EPMC7425333 | biostudies-literature
Project description:Conventional diffusion MRI yields voxel-averaged parameters that suffer from ambiguities for heterogeneous anisotropic materials such as brain tissue. Using principles from solid-state NMR spectroscopy, we have previously introduced the shape of the diffusion encoding tensor as a separate acquisition dimension that disentangles isotropic and anisotropic contributions to the observed diffusivities, thereby allowing for unconstrained data inversion into diffusion tensor distributions with "size," "shape," and orientation dimensions. Here we combine our recent non-parametric data inversion algorithm and data acquisition protocol with an imaging pulse sequence to demonstrate spatial mapping of diffusion tensor distributions using a previously developed composite phantom with multiple isotropic and anisotropic components. We propose a compact format for visualizing two-dimensional arrays of the distributions, new scalar parameters quantifying intra-voxel heterogeneity, and a binning procedure giving maps of all relevant parameters for each of the components resolved in the multidimensional distribution space.
| S-EPMC6593682 | biostudies-literature