Multiplicative intrinsic component optimization (MICO) for MRI bias field estimation and tissue segmentation

Branched-Chain Amino Acid Supplementation Does Not Preserve Lean Mass or Affect Metabolic Profile in Adults with Overweight or Obesity in a Randomized Controlled Weight Loss Intervention

BACKGROUND

Branched-chain amino acid (BCAA) supplementation has been shown to increase muscle mass or prevent muscle loss during weight loss.

OBJECTIVE

We aimed to investigate the effects of a BCAA-supplemented hypocaloric diet on lean mass preservation and insulin sensitivity.

METHODS

A total of 132 Chinese adults (63 men and 69 women aged 21-45 y, BMI 25-36 kg/m2) were block randomly assigned by gender and BMI into 3 hypocaloric diet (deficit of 500 kcal/d) groups: standard-protein (14%) with placebo (control, CT) or BCAA supplements at 0.1 g · kg-1 body weight · d-1 (BCAA) or high-protein (27%) with placebo (HP). The subjects underwent 16 wk of dietary intervention with provision of meals and supplements, followed by 8 wk of weight maintenance with provision of supplements only. One-way ANOVA analysis was conducted to analyze the primary (lean mass and insulin sensitivity) and secondary outcomes (anthropometric and metabolic parameters) among the 3 groups. Paired t-test was used to analyze the change in each group.

RESULTS

The 3 groups demonstrated similar significant reductions in body weight (7.97%), fat mass (13.8%), and waist circumference (7.27%) after 16 wk of energy deficit. Lean mass loss in BCAA (4.39%) tended to be lower than in CT (5.39%) and higher compared with HP (3.67%) (P = 0.06). Calf muscle volume increased 3.4% in BCAA and intramyocellular lipids (IMCLs) decreased in BCAA (17%) and HP (18%) (P < 0.05) over 16 wk. During the 8 wk weight maintenance period, lean mass gain in BCAA (1.03%) tended to be lower compared with CT (1.58%) and higher than in HP (-0.002%) (P = 0.04). Lean mass gain differed significantly between CT and HP (P = 0.03). Insulin sensitivity and metabolic profiles did not differ among the groups throughout the study period.

CONCLUSIONS

BCAA supplementation does not preserve lean mass or affect insulin sensitivity in overweight and obese adults during weight loss. A higher protein diet may be more advantageous for lean mass preservation.

AW-SDRLSE: Adaptive Weighting and Scalable Distance Regularized Level Set Evolution for Lymphoma Segmentation on PET Images

Accurate lymphoma segmentation on Positron Emission Tomography (PET) images is of great importance for medical diagnoses, such as for distinguishing benign and malignant. To this end, this paper proposes an adaptive weighting and scalable distance regularized level set evolution (AW-SDRLSE) method for delineating lymphoma boundaries on 2D PET slices. There are three important characteristics with respect to AW-SDRLSE: 1) A scalable distance regularization term is proposed and a parameter q can control the contour's convergence rate and precision in theory. 2) A novel dynamic annular mask is proposed to calculate mean intensities of local interior and exterior regions and further define the region energy term. 3) As the level set method is sensitive to parameters, we thus propose an adaptive weighting strategy for the length and area energy terms using local region intensity and boundary direction information. AW-SDRLSE is evaluated on 90 cases of real PET data with a mean Dice coefficient of 0.8796. Comparative results demonstrate the accuracy and robustness of AW-SDRLSE as well as its performance advantages as compared with related level set methods. In addition, experimental results indicate that AW-SDRLSE can be a fine segmentation method for improving the lymphoma segmentation results obtained by deep learning (DL) methods significantly.

Automatic Segmentation and Measurement on Knee Computerized Tomography Images for Patellar Dislocation Diagnosis

Traditionally, for diagnosing patellar dislocation, clinicians make manual geometric measurements on computerized tomography (CT) images taken in the knee area, which is often complex and error-prone. Therefore, we develop a prototype CAD system for automatic measurement and diagnosis. We firstly segment the patella and the femur regions on the CT images and then measure two geometric quantities, patellar tilt angle (PTA), and patellar lateral shift (PLS) automatically on the segmentation results, which are finally used to assist in diagnoses. The proposed quantities are proved valid and the proposed algorithms are proved effective by experiments.

A Novel Brain MRI Image Segmentation Method Using an Improved Multi-View Fuzzy c-Means Clustering Algorithm

Background: The brain magnetic resonance imaging (MRI) image segmentation method mainly refers to the division of brain tissue, which can be divided into tissue parts such as white matter (WM), gray matter (GM), and cerebrospinal fluid (CSF). The segmentation results can provide a basis for medical image registration, 3D reconstruction, and visualization. Generally, MRI images have defects such as partial volume effects, uneven grayscale, and noise. Therefore, in practical applications, the segmentation of brain MRI images has difficulty obtaining high accuracy.

Materials and Methods: The fuzzy clustering algorithm establishes the expression of the uncertainty of the sample category and can describe the ambiguity brought by the partial volume effect to the brain MRI image, so it is very suitable for brain MRI image segmentation (B-MRI-IS). The classic fuzzy c-means (FCM) algorithm is extremely sensitive to noise and offset fields. If the algorithm is used directly to segment the brain MRI image, the ideal segmentation result cannot be obtained. Accordingly, considering the defects of MRI medical images, this study uses an improved multiview FCM clustering algorithm (IMV-FCM) to improve the algorithm’s segmentation accuracy of brain images. IMV-FCM uses a view weight adaptive learning mechanism so that each view obtains the optimal weight according to its cluster contribution. The final division result is obtained through the view ensemble method. Under the view weight adaptive learning mechanism, the coordination between various views is more flexible, and each view can be adaptively learned to achieve better clustering effects.

Results: The segmentation results of a large number of brain MRI images show that IMV-FCM has better segmentation performance and can accurately segment brain tissue. Compared with several related clustering algorithms, the IMV-FCM algorithm has better adaptability and better clustering performance.

Improving the characterization of meningioma microstructure in proton therapy from conventional apparent diffusion coefficient measurements using Monte Carlo simulations of diffusion MRI

PURPOSE

Proton therapy could benefit from noninvasively gaining tumor microstructure information, at both planning and monitoring stages. The anatomical location of brain tumors, such as meningiomas, often hinders the recovery of such information from histopathology, and conventional noninvasive imaging biomarkers, like the apparent diffusion coefficient (ADC) from diffusion-weighted MRI (DW-MRI), are nonspecific. The aim of this study was to retrieve discriminative microstructural markers from conventional ADC for meningiomas treated with proton therapy. These markers were employed for tumor grading and tumor response assessment.

METHODS

DW-MRIs from patients affected by meningioma and enrolled in proton therapy were collected before (n = 35) and 3 months after (n = 25) treatment. For the latter group, the risk of an adverse outcome was inferred by their clinical history. Using Monte Carlo methods, DW-MRI signals were simulated from packings of synthetic cells built with well-defined geometrical and diffusion properties. Patients' ADC was modeled as a weighted sum of selected simulated signals. The weights that best described a patient's ADC were determined through an optimization procedure and used to estimate a set of markers of tumor microstructure: diffusion coefficient (D), volume fraction (vf), and radius (R). Apparent cellularity (ρ_app ) was estimated from vf and R for an easier clinical interpretability. Differences between meningothelial and atypical subtypes, and low- and high-grade meningiomas were assessed with nonparametric statistical tests, whereas sensitivity and specificity with ROC analyses. Similar analyses were performed for patients showing low or high risk of an adverse outcome to preliminary evaluate response to treatment.

RESULTS

Significant (P < 0.05) differences in median ADC, D, vf, R, and ρ_app values were found when comparing meningiomas' subtypes and grades. ROC analyses showed that estimated microstructural parameters reached higher specificity than ADC for subtyping (0.93 for D and vf vs 0.80 for ADC) and grading (0.75 for R vs 0.67 for ADC). High- and low-risk patients showed significant differences in ADC and microstructural parameters. The skewness of ρ_app was the parameter with highest AUC (0.90) and sensitivity (0.75).

CONCLUSIONS

Matching measured with simulated ADC yielded a set of potential imaging markers for meningiomas grading and response monitoring in proton therapy, showing higher specificity than conventional ADC. These markers can provide discriminative information about spatial patterns of tumor microstructure implying important advantages for patient-specific proton therapy workflows.

Multisite Autism Spectrum Disorder Classification Using Convolutional Neural Network Classifier and Individual Morphological Brain Networks

Autism spectrum disorder (ASD) is a range of neurodevelopmental disorders with behavioral and cognitive impairment and brings huge burdens to the patients' families and the society. To accurately identify patients with ASD from typical controls is important for early detection and early intervention. However, almost all the current existing classification methods for ASD based on structural MRI (sMRI) mainly utilize the independent local morphological features and do not consider the covariance patterns of these features between regions. In this study, by combining the convolutional neural network (CNN) and individual structural covariance network, we proposed a new framework to classify ASD patients with sMRI data from the ABIDE consortium. Moreover, gradient-weighted class activation mapping (Grad-CAM) was applied to characterize the weight of features contributing to the classification. The experimental results showed that our proposed method outperforms the currently used methods for classifying ASD patients with the ABIDE data and achieves a high classification accuracy of 71.8% across different sites. Furthermore, the discriminative features were found to be mainly located in the prefrontal cortex and cerebellum, which may be the early biomarkers for the diagnosis of ASD. Our study demonstrated that CNN is an effective tool to build the framework for the diagnosis of ASD with individual structural covariance brain network.

A level set method based on domain transformation and bias correction for MRI brain tumor segmentation

BACKGROUND

Intensity inhomogeneity is one of the common artifacts in image processing. This artifact makes image segmentation more challenging and adversely affects the performance of intensity-based image processing algorithms.

NEW METHOD

In this paper, a novel region-based level set method is proposed for segmenting the images with intensity inhomogeneity with applications to brain tumor segmentation in magnetic resonance imaging (MRI) scans. For this purpose, the inhomogeneous regions are first modeled as Gaussian distributions with different means and variances, and then transferred into a new domain, where preserves the Gaussian intensity distribution of each region but with better separation. Moreover, our method can perform bias field correction. To this end, the bias field is represented by a linear combination of smooth base functions that enables better intensity inhomogeneity modeling. Therefore, level set fundamental formulation and bias field are modified in the proposed approach.

RESULTS

To assess the performance of the proposed method, different inhomogeneous images, including synthetic images as well as real brain magnetic resonance images from BraTS 2017 dataset are segmented. Being evaluated by Dice, Jaccard, Sensitivity, and Specificity metrics, the results show that the proposed method suppresses the side effect of the over-smoothing object boundary and it has good accuracy in the segmentation of images with extreme intensity non-uniformity. The mean values of these metrics in brain tumor segmentation are 0.86 ± 0.03, 0.77 ± 0.05, 0.94 ± 0.04, 0.99 ± 0.003, respectively.

COMPARISON WITH EXISTING METHOD(S)

Our method were compared with six state-of-the-art image segmentation methods: Chan-Vese (CV), Local Intensity Clustering (LIC), Local iNtensity Clustering (LINC), Global inhomogeneous intensity clustering (GINC), Multiplicative Intrinsic Component Optimization (MICO), and Local Statistical Active Contour Model (LSACM) models. We used qualitative and quantitative comparison methods for segmenting synthetic and real images. Experiments indicate that our proposed method is robust to noise and intensity non-uniformity and outperforms other state-of-the-art segmentation methods in terms of bias field correction, noise resistance, and segmentation accuracy.

CONCLUSIONS

Experimental results show that the proposed model is capable of accurate segmentation and bias field estimation simultaneously. The proposed model suppresses the side effect of the over-smoothing object boundary. Moreover, our model has good accuracy in the segmentation of images with extreme intensity non-uniformity.

Fast level set method for glioma brain tumor segmentation based on Superpixel fuzzy clustering and lattice Boltzmann method

BACKGROUND AND OBJECTIVE

Brain tumor segmentation is a challenging issue due to noise, artifact, and intensity non-uniformity in magnetic resonance images (MRI). Manual MRI segmentation is a very tedious, time-consuming, and user-dependent task. This paper aims to presents a novel level set method to address aforementioned challenges for reliable and automatic brain tumor segmentation.

METHODS

In the proposed method, a new functional, based on level set method, is presented for medical image segmentation. Firstly, we define a superpixel fuzzy clustering objective function. To create superpixel regions, multiscale morphological gradient reconstruction (MMGR) operation is used. Secondly, a novel fuzzy energy functional is defined based on superpixel segmentation and histogram computation. Then, level set equations are obtained by using gradient descent method. Finally, we solve the level set equations by using lattice Boltzmann method (LBM). To evaluate the performance of the proposed method, both synthetic image dataset and real Glioma brain tumor images from BraTS 2017 dataset are used.

RESULTS

Experiments indicate that our proposed method is robust to noise, initialization, and intensity non-uniformity. Moreover, it is faster and more accurate than other state-of-the-art segmentation methods with the averages of running time is 3.25 seconds, Dice and Jaccard coefficients for automatic tumor segmentation against ground truth are 0.93 and 0.87, respectively. The mean value of Hausdorff distance, Mean absolute Distance (MAD), accuracy, sensitivity, and specificity are 2.70, 0.005, 0.9940, 0.9183, and 0.9972, respectively.

CONCLUSIONS

Our proposed method shows satisfactory results for Glioma brain tumor segmentation due to superpixel fuzzy clustering accurate segmentation results. Moreover, our method is fast and robust to noise, initialization, and intensity non-uniformity. Since most of the medical images suffer from these problems, the proposed method can more effective for complicated medical image segmentation.

Intensity non-uniformity correction in MR imaging using residual cycle generative adversarial network

Correcting or reducing the effects of voxel intensity non-uniformity (INU) within a given tissue type is a crucial issue for quantitative magnetic resonance (MR) image analysis in daily clinical practice. Although having no severe impact on visual diagnosis, the INU can highly degrade the performance of automatic quantitative analysis such as segmentation, registration, feature extraction and radiomics. In this study, we present an advanced deep learning based INU correction algorithm called residual cycle generative adversarial network (res-cycle GAN), which integrates the residual block concept into a cycle-consistent GAN (cycle-GAN). In cycle-GAN, an inverse transformation was implemented between the INU uncorrected and corrected magnetic resonance imaging (MRI) images to constrain the model through forcing the calculation of both an INU corrected MRI and a synthetic corrected MRI. A fully convolution neural network integrating residual blocks was applied in the generator of cycle-GAN to enhance end-to-end raw MRI to INU corrected MRI transformation. A cohort of 55 abdominal patients with T1-weighted MR INU images and their corrections with a clinically established and commonly used method, namely, N4ITK were used as a pair to evaluate the proposed res-cycle GAN based INU correction algorithm. Quantitatively comparisons of normalized mean absolute error (NMAE), peak signal-to-noise ratio (PSNR), normalized cross-correlation (NCC) indices, and spatial non-uniformity (SNU) were made among the proposed method and other approaches. Our res-cycle GAN based method achieved an NMAE of 0.011 ± 0.002, a PSNR of 28.0 ± 1.9 dB, an NCC of 0.970 ± 0.017, and a SNU of 0.298 ± 0.085. Our proposed method has significant improvements (p < 0.05) in NMAE, PSNR, NCC and SNU over other algorithms including conventional GAN and U-net. Once the model is well trained, our approach can automatically generate the corrected MR images in a few minutes, eliminating the need for manual setting of parameters.

Progressive multifocal leukoencephalopathy lesion and brain parenchymal segmentation from MRI using serial deep convolutional neural networks

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PML has characteristic dynamic changes in brain and lesion volume on MRI.

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JCnet is an automated method for brain atrophy and lesion segmentation in PML.

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JCnet improves PML lesion segmentation accuracy compared to conventional methods.

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JCnet can accurately track PML lesion changes over time.

Progressive multifocal leukoencephalopathy (PML) is a rare opportunistic brain infection caused by the JC virus and associated with substantial morbidity and mortality. Accurate MRI assessment of PML lesion burden and brain parenchymal atrophy is of decisive value in monitoring the disease course and response to therapy. However, there are currently no validated automatic methods for quantification of PML lesion burden or associated parenchymal volume loss. Furthermore, manual brain or lesion delineations can be tedious, require the use of valuable time resources by radiologists or trained experts, and are often subjective. In this work, we introduce JCnet (named after the causative viral agent), an end-to-end, fully automated method for brain parenchymal and lesion segmentation in PML using consecutive 3D patch-based convolutional neural networks. The network architecture consists of multi-view feature pyramid networks with hierarchical residual learning blocks containing embedded batch normalization and nonlinear activation functions. The feature maps across the bottom-up and top-down pathways of the feature pyramids are merged, and an output probability membership generated through convolutional pathways, thus rendering the method fully convolutional. Our results show that this approach outperforms and improves longitudinal consistency compared to conventional, state-of-the-art methods of healthy brain and multiple sclerosis lesion segmentation, utilized here as comparators given the lack of available methods validated for use in PML. The ability to produce robust and accurate automated measures of brain atrophy and lesion segmentation in PML is not only valuable clinically but holds promise toward including standardized quantitative MRI measures in clinical trials of targeted therapies. Code is available at: https://github.com/omarallouz/JCnet.

Sensitive Detection of Infratentorial and Upper Cervical Cord Lesions in Multiple Sclerosis with Combined 3D FLAIR and T2-Weighted (FLAIR3) Imaging

BACKGROUND AND PURPOSE

Infratentorial and spinal cord lesions are important for diagnosing and monitoring multiple sclerosis, but they are difficult to detect on conventional MR imaging. We sought to improve the detection of infratentorial and upper cervical cord lesions using composite FLAIR3 images.

MATERIALS AND METHODS

3D T2-weighted FLAIR and 3D T2-weighted images were acquired in 30 patients with MS and combined using the FLAIR3 formula. FLAIR3 was assessed against 3D T2-FLAIR by comparing the number of infratentorial and upper cervical cord lesions per subject using the Wilcoxon signed rank test. Intrarater and interrater reliability was evaluated using the intraclass correlation coefficient. The number of patients with and without ≥1 visible infratentorial/spinal cord lesion on 3D T2-FLAIR versus FLAIR3 was calculated to assess the potential impact on the revised MS diagnostic criteria.

RESULTS

Compared with 3D T2-FLAIR, FLAIR3 detected significantly more infratentorial (mean, 4.6 ± 3.6 versus 2.0 ± 1.8, P < .001) and cervical cord (mean, 1.58 ± 0.94 versus 0.46 ± 0.45, P < .001) lesions per subject. FLAIR3 demonstrated significantly improved interrater reliability (intraclass correlation coefficient = 0.77 [95% CI, 0.63-0.87] versus 0.60 [95% CI, 0.40-0.76] with 3D T2-FLAIR, P = .019) and a tendency toward a higher intrarater reliability (0.86 [95% CI, 0.73-0.93] versus 0.79 [95% CI, 0.61-0.89], P = .23). In our cohort, 20%-30% (47%-67%) of the subjects with MS had  ≥ 1 infratentorial (cervical cord) lesion visible only on FLAIR3.

CONCLUSIONS

FLAIR3 provides higher sensitivity than T2-FLAIR for the detection of MS lesions in infratentorial brain parenchyma and the upper cervical cord.

Comparison of single breath hyperpolarized 129 Xe MRI with dynamic 19 F MRI in cystic fibrosis lung disease

Purpose

To quantitatively compare dynamic ¹⁹F and single breath hyperpolarized ¹²⁹Xe MRI for the detection of ventilation abnormalities in subjects with mild cystic fibrosis (CF) lung disease.

Methods

Ten participants with stable CF and a baseline FEV1 > 70% completed a single imaging session where dynamic ¹⁹F and single breath ¹²⁹Xe lung ventilation images were acquired on a 3T MRI scanner. Ventilation defect percentages (VDP) values between ¹⁹F early‐breath, ¹⁹F maximum‐ventilation, ¹²⁹Xe low‐resolution, and ¹²⁹Xe high‐resolution images were compared. Dynamic ¹⁹F images were used to determine gas wash‐in/out rates in regions of ventilation congruency and mismatch between ¹²⁹Xe and ¹⁹F.

Results

VDP values from high‐resolution ¹²⁹Xe images were greater than from low‐resolution images (P = .001), although these values were significantly correlated (r = 0.68, P = .03). Early‐breath ¹⁹F VDP and max‐vent ¹⁹F VDP also showed significant correlation (r = 0.75, P = .012), with early‐breath ¹⁹F VDP values being significantly greater (P < .001). No correlation in VDP values were detected between either ¹⁹F method or high‐res ¹²⁹Xe images. In addition, the location and volume of ventilation defects were often different when comparing ¹²⁹Xe and ¹⁹F images from the same subject. Areas of ventilation congruence displayed the expected ventilation kinetics, while areas of ventilation mismatch displayed abnormally slow gas wash‐in and wash‐out.

Conclusion

In CF subjects, ventilation abnormalities are identified by both ¹⁹F and HP ¹²⁹Xe imaging. However, these ventilation abnormalities are not entirely congruent. ¹⁹F and HP ¹²⁹Xe imaging provide complementary information that enable differentiation of normally ventilated, slowly ventilated, and non‐ventilated regions in the lungs.

Suspicious Lesion Segmentation on Brain, Mammograms and Breast MR Images Using New Optimized Spatial Feature Based Super-Pixel Fuzzy C-Means Clustering

Suspicious lesion or organ segmentation is a challenging task to be solved in most of the medical image analyses, medical diagnoses and computer diagnosis systems. Nevertheless, various image segmentation methods were proposed in the previous studies with varying success levels. But, the image segmentation problems such as lack of versatility, low robustness, high complexity and low accuracy in up-to-date image segmentation practices still remain unsolved. Fuzzy c-means clustering (FCM) methods are very well suited for segmenting the regions. The noise-free images are effectively segmented using the traditional FCM method. However, the segmentation result generated is highly sensitive to noise due to the negligence of spatial information. To solve this issue, super-pixel-based FCM (SPOFCM) is implemented in this paper, in which the influence of spatially neighbouring and similar super-pixels is incorporated. Also, a crow search algorithm is adopted for optimizing the influential degree; thereby, the segmentation performance is improved. In clinical applications, the SPOFCM feasibility is verified using the multi-spectral MRIs, mammograms and actual single spectrum on performing tumour segmentation tests for SPOFCM. Ultimately, the competitive, renowned segmentation techniques such as k-means, entropy thresholding (ET), FCM, FCM with spatial constraints (FCM_S) and kernel FCM (KFCM) are used to compare the results of proposed SPOFCM. Experimental results on multi-spectral MRIs and actual single-spectrum mammograms indicate that the proposed algorithm can provide a better performance for suspicious lesion or organ segmentation in computer-assisted clinical applications.

The Subplate Layers: The Superficial and Deep Subplate Can be Discriminated on 3 Tesla Human Fetal Postmortem MRI

The subplate (SP) is a transient structure of the human fetal brain that becomes the most prominent layer of the developing pallium during the late second trimester. It is important in the formation of thalamocortical and cortico-cortical connections. The SP is vulnerable in perinatal brain injury and may play a role in complex neurodevelopmental disorders, such as schizophrenia and autism. Nine postmortem fetal human brains (19-24 GW) were imaged on a 3 Tesla MR scanner and the T2-w images in the frontal and temporal lobes were compared, in each case, with the histological slices of the same brain. The brains were confirmed to be without any brain pathology. The purpose of this study was to demonstrate that the superficial SP (sSP) and deep SP (dSP) can be discriminated on postmortem MR images. More specifically, we aimed to clarify that the observable, thin, hyperintense layer below the cortical plate in the upper SP portion on T2-weighted MR images has an anatomical correspondence to the histologically established sSP. Therefore, the distinction between the sSP and dSP layers, using clinically available MR imaging methodology, is possible in postmortem MRI and can help in the imaging interpretation of the fetal cerebral layers.

Segmentation of MR Brain Images Through Hidden Markov Random Field and Hybrid Metaheuristic Algorithm

Image segmentation is one of the most critical tasks in Magnetic Resonance (MR) images analysis. Since the performance of most current image segmentation methods is suffered by noise and intensity non-uniformity artifact (INU), a precise and artifact resistant method is desired. In this work, we propose a new segmentation method combining a new Hidden Markov Random Field (HMRF) model and a novel hybrid metaheuristic method based on Cuckoo search (CS) and Particle swarm optimization algorithms (PSO). The new model uses adaptive parameters to allow balancing between the segmented components of the model. In addition, to improve the quality of searching solutions in the Maximum a posteriori (MAP) estimation of the HMRF model, the hybrid metaheuristic algorithm is introduced. This algorithm takes into account both the advantages of CS and PSO algorithms in searching ability by cooperating them with the same population in a parallel way and with a solution selection mechanism. Since CS and PSO are performing exploration and exploitation in the search space, respectively, hybridizing them in an intelligent way can provide better solutions in terms of quality. Furthermore, initialization of the population is carefully taken into account to improve the performance of the proposed method. The whole algorithm is evaluated on benchmark images including both the simulated and real MR brain images. Experimental results show that the proposed method can achieve satisfactory performance for images with noise and intensity inhomogeneity, and provides better results than its considered competitors.

A Spatially Constrained Probabilistic Model for Robust Image Segmentation

In general, the hidden Markov random field (HMRF) represents the class label distribution of an image in probabilistic model based segmentation. The class label distributions provided by existing HMRF models consider either the number of neighboring pixels with similar class labels or the spatial distance of neighboring pixels with dissimilar class labels. Also, this spatial information is only considered for estimation of class labels of the image pixels, while its contribution in parameter estimation is completely ignored. This, in turn, deteriorates the parameter estimation, resulting in sub-optimal segmentation performance. Moreover, the existing models assign equal weightage to the spatial information for class label estimation of all pixels throughout the image, which, create significant misclassification for the pixels in boundary region of image classes. In this regard, the paper develops a new clique potential function and a new class label distribution, incorporating the information of image class parameters. Unlike existing HMRF model based segmentation techniques, the proposed framework introduces a new scaling parameter that adaptively measures the contribution of spatial information for class label estimation of image pixels. The importance of the proposed framework is depicted by modifying the HMRF based segmentation methods. The advantage of proposed class label distribution is also demonstrated irrespective of the underlying intensity distributions. The comparative performance of the proposed and existing class label distributions in HMRF model is demonstrated both qualitatively and quantitatively for brain MR image segmentation, HEp-2 cell delineation, natural image and object segmentation.

Unsupervised Cerebrovascular Segmentation of TOF-MRA Images Based on Deep Neural Network and Hidden Markov Random Field Model

Automated cerebrovascular segmentation of time-of-flight magnetic resonance angiography (TOF-MRA) images is an important technique, which can be used to diagnose abnormalities in the cerebrovascular system, such as vascular stenosis and malformation. Automated cerebrovascular segmentation can direct show the shape, direction and distribution of blood vessels. Although deep neural network (DNN)-based cerebrovascular segmentation methods have shown to yield outstanding performance, they are limited by their dependence on huge training dataset. In this paper, we propose an unsupervised cerebrovascular segmentation method of TOF-MRA images based on DNN and hidden Markov random field (HMRF) model. Our DNN-based cerebrovascular segmentation model is trained by the labeling of HMRF rather than manual annotations. The proposed method was trained and tested using 100 TOF-MRA images. The results were evaluated using the dice similarity coefficient (DSC), which reached a value of 0.79. The trained model achieved better performance than that of the traditional HMRF-based cerebrovascular segmentation method in binary pixel-classification. This paper combines the advantages of both DNN and HMRF to train the model with a not so large amount of the annotations in deep learning, which leads to a more effective cerebrovascular segmentation method.

Transceive phase mapping using the PLANET method and its application for conductivity mapping in the brain

Purpose

To demonstrate feasibility of transceive phase mapping with the PLANET method and its application for conductivity reconstruction in the brain.

Methods

Accuracy and precision of transceive phase (ϕ^±) estimation with PLANET, an ellipse fitting approach to phase‐cycled balanced steady state free precession (bSSFP) data, were assessed with simulations and measurements and compared to standard bSSFP. Measurements were conducted on a homogeneous phantom and in the brain of healthy volunteers at 3 tesla. Conductivity maps were reconstructed with Helmholtz‐based electrical properties tomography. In measurements, PLANET was also compared to a reference technique for transceive phase mapping, i.e., spin echo.

Results

Accuracy and precision of ϕ^± estimated with PLANET depended on the chosen flip angle and TR. PLANET‐based ϕ^± was less sensitive to perturbations induced by off‐resonance effects and partial volume (e.g., white matter + myelin) than bSSFP‐based ϕ^±. For flip angle = 25° and TR = 4.6 ms, PLANET showed an accuracy comparable to that of reference spin echo but a higher precision than bSSFP and spin echo (factor of 2 and 3, respectively). The acquisition time for PLANET was ~5 min; 2 min faster than spin echo and 8 times slower than bSSFP. However, PLANET simultaneously reconstructed T₁, T₂, B₀ maps besides mapping ϕ^±. In the phantom, PLANET‐based conductivity matched the true value and had the smallest spread of the three methods. In vivo, PLANET‐based conductivity was similar to spin echo‐based conductivity.

Conclusion

Provided that appropriate sequence parameters are used, PLANET delivers accurate and precise ϕ^± maps, which can be used to reconstruct brain tissue conductivity while simultaneously recovering T₁, T₂, and B₀ maps.

Conductivity Tensor Imaging of In Vivo Human Brain and Experimental Validation Using Giant Vesicle Suspension

Human brain mapping of low-frequency electrical conductivity tensors can realize patient-specific volume conductor models for neuroimaging and electrical stimulation. We report experimental validation and in vivo human experiments of a new electrodeless conductivity tensor imaging (CTI) method. From CTI imaging of a giant vesicle suspension using a 9.4-T MRI scanner, the relative error in the reconstructed conductivity tensor image was found to be less than 1.7% compared with the measured value using an impedance analyzer. In vivo human brain imaging experiments of five subjects were followed using a 3-T clinical MRI scanner. With the spatial resolution of 1.87 mm, the white matter conductivity showed considerably more position dependency compared with the gray matter and cerebrospinal fluid (CSF). The anisotropy ratio of the white matter was in the range of 1.96-3.25 with a mean value of 2.43, whereas that of the gray matter was in the range of 1.12-1.19 with a mean value of 1.16. The three diagonal components of the reconstructed conductivity tensors were from 0.08 to 0.27 S/m for the white matter, from 0.20 to 0.30 S/m for the gray matter, and from 1.55 to 1.82 S/m for the CSF. The reconstructed conductivity tensor images exhibited significant inter-subject variabilities in terms of frequency and position dependencies. The high-frequency and low-frequency conductivity values can quantify the total and extracellular water contents, respectively, at every pixel. Their difference can quantify the intracellular water content at every pixel. The CTI method can separately quantify the contributions of ion concentrations and mobility to the conductivity tensor.

UTE-mDixon-based thorax synthetic CT generation

PURPOSE

Accurate photon attenuation assessment from MR data remains an unmet challenge in the thorax due to tissue heterogeneity and the difficulty of MR lung imaging. As thoracic tissues encompass the whole physiologic range of photon absorption, large errors can occur when using, for example, a uniform, water-equivalent or a soft-tissue-only approximation. The purpose of this study was to introduce a method for voxel-wise thoracic synthetic CT (sCT) generation from MR data attenuation correction (AC) for PET/MR or for MR-only radiation treatment planning (RTP).

METHODS

Acquisition: A radial stack-of-stars combining ultra-short-echo time (UTE) and modified Dixon (mDixon) sequence was optimized for thoracic imaging. The UTE-mDixon pulse sequence collects MR signals at three TE times denoted as UTE, Echo1, and Echo2. Three-point mDixon processing was used to reconstruct water and fat images. Bias field correction was applied in order to avoid artifacts caused by inhomogeneity of the MR magnetic field.

ANALYSIS

Water fraction and R2* maps were estimated using the UTE-mDixon data to produce a total of seven MR features, that is UTE, Echo1, Echo2, Dixon water, Dixon fat, Water fraction, and R2*. A feature selection process was performed to determine the optimal feature combination for the proposed automatic, 6-tissue classification for sCT generation. Fuzzy c-means was used for the automatic classification which was followed by voxel-wise attenuation coefficient assignment as a weighted sum of those of the component tissues. Performance evaluation: MR data collected using the proposed pulse sequence were compared to those using a traditional two-point Dixon approach. Image quality measures, including image resolution and uniformity, were evaluated using an MR ACR phantom. Data collected from 25 normal volunteers were used to evaluate the accuracy of the proposed method compared to the template-based approach. Notably, the template approach is applicable here, that is normal volunteers, but may not be robust enough for patients with pathologies.

RESULTS

The free breathing UTE-mDixon pulse sequence yielded images with quality comparable to those using the traditional breath holding mDixon sequence. Furthermore, by capturing the signal before T2* decay, the UTE-mDixon image provided lung and bone information which the mDixon image did not. The combination of Dixon water, Dixon fat, and the Water fraction was the most robust for tissue clustering and supported the classification of six tissues, that is, air, lung, fat, soft tissue, low-density bone, and dense bone, used to generate the sCT. The thoracic sCT had a mean absolute difference from the template-based (reference) CT of less than 50 HU and which was better agreement with the reference CT than the results produced using the traditional Dixon-based data.

CONCLUSION

MR thoracic acquisition and analyses have been established to automatically provide six distinguishable tissue types to generate sCT for MR-based AC of PET/MR and for MR-only RTP.

Processing Pipeline for Atlas-Based Imaging Data Analysis of Structural and Functional Mouse Brain MRI (AIDAmri)

Magnetic resonance imaging (MRI) is a key technology in multimodal animal studies of brain connectivity and disease pathology. In vivo MRI provides non-invasive, whole brain macroscopic images containing structural and functional information, thereby complementing invasive in vivo high-resolution microscopy and ex vivo molecular techniques. Brain mapping, the correlation of corresponding regions between multiple brains in a standard brain atlas system, is widely used in human MRI. For small animal MRI, however, there is no scientific consensus on pre-processing strategies and atlas-based neuroinformatics. Thus, it remains difficult to compare and validate results from different pre-clinical studies which were processed using custom-made code or individual adjustments of clinical MRI software and without a standard brain reference atlas. Here, we describe AIDAmri, a novel Atlas-based Imaging Data Analysis pipeline to process structural and functional mouse brain data including anatomical MRI, fiber tracking using diffusion tensor imaging (DTI) and functional connectivity analysis using resting-state functional MRI (rs-fMRI). The AIDAmri pipeline includes automated pre-processing steps, such as raw data conversion, skull-stripping and bias-field correction as well as image registration with the Allen Mouse Brain Reference Atlas (ARA). Following a modular structure developed in Python scripting language, the pipeline integrates established and newly developed algorithms. Each processing step was optimized for efficient data processing requiring minimal user-input and user programming skills. The raw data is analyzed and results transferred to the ARA coordinate system in order to allow an efficient and highly-accurate region-based analysis. AIDAmri is intended to fill the gap of a missing open-access and cross-platform toolbox for the most relevant mouse brain MRI sequences thereby facilitating data processing in large cohorts and multi-center studies.

A multi-objective optimization approach for brain MRI segmentation using fuzzy entropy clustering and region-based active contour methods

In this paper, we present a new multi-objective optimization approach for segmentation of Magnetic Resonance Imaging (MRI) of the human brain. The proposed algorithm not only takes advantages but also solves major drawbacks of two well-known complementary techniques, called fuzzy entropy clustering method and region-based active contour method, using multi-objective particle swarm optimization (MOPSO) approach. In order to obtain accurate segmentation results, firstly, two fitness functions with independent characteristics, compactness and separation, are derived from kernelized fuzzy entropy clustering with local spatial information and bias correction (KFECSB) and a novel adaptive energy weight combined with global and local fitting energy active contour (AWGLAC) model. Then, they are simultaneously optimized to finally produce a set of non-dominated solutions, from which L₂-metric method is used to select the best trade-off solution. Our algorithm is both verified and compared with other state-of-the-art methods using simulated MR images and real MR images from the McConnell Brain Imaging Center (BrainWeb) and the Internet Brain Segmentation Repository (IBSR), respectively. The experimental results demonstrate that the proposed technique achieves superior segmentation performance in terms of accuracy and robustness.

Sociodemographic disparities in corticolimbic structures

This study sought to examine the interactive relations of socioeconomic status and race to corticolimbic regions that may play a key role in translating stress to the poor health outcomes overrepresented among those of lower socioeconomic status and African American race. Participants were 200 community-dwelling, self-identified African American and White adults from the Healthy Aging in Neighborhoods of Diversity across the Life Span SCAN study. Brain volumes were derived using T1-weighted MP-RAGE images. Socioeconomic status by race interactions were observed for right medial prefrontal cortex (B = .26, p = .014), left medial prefrontal cortex (B = .26, p = .017), left orbital prefrontal cortex (B = .22, p = .037), and left anterior cingulate cortex (B = .27, p = .018), wherein higher socioeconomic status Whites had greater volumes than all other groups. Additionally, higher versus lower socioeconomic status persons had greater right and left hippocampal (B = -.15, p = .030; B = -.19, p = .004, respectively) and amygdalar (B = -.17, p = .015; B = -.21; p = .002, respectively) volumes. Whites had greater right and left hippocampal (B = -.17, p = .012; B = -.20, p = .003, respectively), right orbital prefrontal cortex (B = -.34, p < 0.001), and right anterior cingulate cortex (B = -.18, p = 0.011) volumes than African Americans. Among many factors, the higher levels of lifetime chronic stress associated with lower socioeconomic status and African American race may adversely affect corticolimbic circuitry. These relations may help explain race- and socioeconomic status-related disparities in adverse health outcomes.

Retrospective correction of intensity inhomogeneity with sparsity constraints in transform-domain: Application to brain MRI

An effective retrospective correction method is introduced in this paper for intensity inhomogeneity which is an inherent artifact in MR images. Intensity inhomogeneity problem is formulated as the decomposition of acquired image into true image and bias field which are expected to have sparse approximation in suitable transform domains based on their known properties. Piecewise constant nature of the true image lends itself to have a sparse approximation in framelet domain. While spatially smooth property of the bias field supports a sparse representation in Fourier domain. The algorithm attains optimal results by seeking the sparsest solutions for the unknown variables in the search space through L₁ norm minimization. The objective function associated with defined problem is convex and is efficiently solved by the linearized alternating direction method. Thus, the method estimates the optimal true image and bias field simultaneously in an L₁ norm minimization framework by promoting sparsity of the solutions in suitable transform domains. Furthermore, the methodology doesn't require any preprocessing, any predefined specifications or parametric models that are critically controlled by user-defined parameters. The qualitative and quantitative validation of the proposed methodology in simulated and real human brain MR images demonstrates the efficacy and superiority in performance compared to some of the distinguished algorithms for intensity inhomogeneity correction.

Context Dependent Fuzzy Associated Statistical Model for Intensity Inhomogeneity Correction From Magnetic Resonance Images

In this paper, a novel context-dependent fuzzy set associated statistical model-based intensity inhomogeneity correction technique for magnetic resonance image (MRI) is proposed. The observed MRI is considered to be affected by intensity inhomogeneity and it is assumed to be a multiplicative quantity. In the proposed scheme the intensity inhomogeneity correction and MRI segmentation is considered as a combined task. The maximum a posteriori probability (MAP) estimation principle is explored to solve this problem. A fuzzy set associated Gibbs’ Markov random field (MRF) is considered to model the spatio-contextual information of an MRI. It is observed that the MAP estimate of the MRF model does not yield good results with any local searching strategy, as it gets trapped to local optimum. Hence, we have exploited the advantage of variable neighborhood searching (VNS)-based iterative global convergence criterion for MRF-MAP estimation. The effectiveness of the proposed scheme is established by testing it on different MRIs. Three performance evaluation measures are considered to evaluate the performance of the proposed scheme against existing state-of-the-art techniques. The simulation results establish the effectiveness of the proposed technique.

OCT feature analysis guided artery-vein differentiation in OCTA

Differential artery-vein analysis promises better sensitivity for retinal disease detection and classification. However, clinical optical coherence tomography angiography (OCTA) instruments lack the function of artery-vein differentiation. This study aims to verify the feasibility of using OCT intensity feature analysis to guide artery-vein differentiation in OCTA. Four OCT intensity profile features, including i) ratio of vessel width to central reflex, ii) average of maximum profile brightness, iii) average of median profile intensity, and iv) optical density of vessel boundary intensity compared to background intensity, are used to classify artery-vein source nodes in OCT. A blood vessel tracking algorithm is then employed to automatically generate the OCT artery-vein map. Given the fact that OCT and OCTA are intrinsically reconstructed from the same raw spectrogram, the OCT artery-vein map is able to guide artery-vein differentiation in OCTA directly.

Brain Tissue Segmentation and Bias Field Correction of MR Image Based on Spatially Coherent FCM with Nonlocal Constraints

Influenced by poor radio frequency field uniformity and gradient-driven eddy currents, intensity inhomogeneity (or bias field) and noise appear in brain magnetic resonance (MR) image. However, some traditional fuzzy c-means clustering algorithms with local spatial constraints often cannot obtain satisfactory segmentation performance. Therefore, an objective function based on spatial coherence for brain MR image segmentation and intensity inhomogeneity correction simultaneously is constructed in this paper. First, a novel similarity measure including local neighboring information is designed to improve the separability of MR data in Gaussian kernel mapping space without image smoothing, and the similarity measure incorporates the spatial distance and grayscale difference between cluster centroid and its neighborhood pixels. Second, the objective function with an adaptive nonlocal spatial regularization term is drawn upon to compensate the drawback of the local spatial information. Meanwhile, bias field information is also embedded into the similarity measure of clustering algorithm. From the comparison between the proposed algorithm and the state-of-the-art methods, our model is more robust to noise in the brain magnetic resonance image, and the bias field is also effectively estimated.

A Modified Robust FCM Model with Spatial Constraints for Brain MR Image Segmentation

In brain magnetic resonance (MR) images, image quality is often degraded due to the influence of noise and outliers, which brings some difficulties for doctors to segment and extract brain tissue accurately. In this paper, a modified robust fuzzy c-means (MRFCM) algorithm for brain MR image segmentation is proposed. According to the gray level information of the pixels in the local neighborhood, the deviation values of each adjacent pixel are calculated in kernel space based on their median value, and the normalized adaptive weighted measure of each pixel is obtained. Both impulse noise and Gaussian noise in the image can be effectively suppressed, and the detail and edge information of the brain MR image can be better preserved. At the same time, the gray histogram is used to replace single pixel during the clustering process. The results of segmentation of MRFCM are compared with the state-of-the-art algorithms based on fuzzy clustering, and the proposed algorithm has the stronger anti-noise property, better robustness to various noises and higher segmentation accuracy.

Uniform combined reconstruction of multichannel 7T knee MRI receive coil data without the use of a reference scan

BACKGROUND

MR image intensity nonuniformity is often observed at 7T. Reference scans from the body coil used for uniformity correction at lower field strengths are typically not available at 7T.

PURPOSE

To evaluate the efficacy of a novel algorithm, Uniform Combined Reconstruction (UNICORN), to correct receive coil-induced nonuniformity in musculoskeletal 7T MRI without the use of a reference scan.

STUDY TYPE

Retrospective image analysis study.

SUBJECTS

MRI data of 20 subjects was retrospectively processed offline. Field Strength/Sequence: Knees of 20 subjects were imaged at 7T with a single-channel transmit, 28-channel phased-array receive knee coil. A turbo-spin-echo sequence was used to acquire 33 series of images.

ASSESSMENT

Three fellowship-trained musculoskeletal radiologists with cumulative experience of 42 years reviewed the images. The uniformity, contrast, signal-to-noise ratio (SNR), and overall image quality were evaluated for images with no postprocessing, images processed with N4 bias field correction algorithm, and the UNICORN algorithm.

STATISTICAL TESTS

Intraclass correlation coefficient (ICC) was used for measuring the interrater reliability. ICC and 95% confidence intervals (CIs) were calculated using the R statistical package employing a two-way mixed-effects model based on a mean rating (k = 3) for absolute agreement. The Wilcoxon signed-rank test with continuity correction was used for analyzing the overall image quality scores.

RESULTS

UNICORN was preferred among the three methods evaluated for uniformity in 97.9% of the pooled ratings, with excellent interrater agreement (ICC of 0.98, CI 0.97-0.99). UNICORN was also rated better than N4 for contrast and equivalent to N4 in SNR with ICCs of 0.80 (CI 0.72-0.86) and 0.67 (CI 0.54-0.77), respectively. The overall image quality scores for UNICORN were significantly higher than N4 (P < 6 × 10^-13 ), with good to excellent interrater agreement (ICC 0.90, CI 0.86-0.93).

DATA CONCLUSION

Without the use of a reference scan, UNICORN provides better image uniformity, contrast, and overall image quality at 7T compared with the N4 bias field-correction algorithm.

LEVEL OF EVIDENCE

4 Technical Efficacy: Stage 1 J. Magn. Reson. Imaging 2019;50:1534-1544.

Cigarette smoking and gray matter brain volumes in middle age adults: the CARDIA Brain MRI sub-study

Cigarette smoking has been associated with dementia and dementia-related brain changes, notably gray matter (GM) volume atrophy. These associations are thought to reflect the co-morbidity of smoking and vascular, respiratory, and substance use/psychological conditions. However, the extent and localization of the smoking-GM relationship and the degree to which vascular, respiratory, and substance use/psychological factors influence this relationship remain unclear. In the Coronary Artery Risk Development in Young Adults CARDIA cohort (n = 698; 52% women; 40% black participants; age = 50.3 (SD = 3.5)), we examined the associations of smoking status with total GM volume and GM volume of brain regions linked to neurocognitive and addiction disorders. Linear regression models were used to adjust for vascular, respiratory, and substance use/psychological factors and to examine whether they modify the smoking-GM relationship. Compared to never-smokers, current smokers had smaller total GM volume (-8.86 cm³ (95%CI = -13.44, -4.29). Adjustment for substance use/psychological - but not vascular or respiratory - factors substantially attenuated this association (coefficients = -5.54 (95% CI = -10.32, -0.76); -8.33 (95% CI = -12.94, -3.72); -7.69 (95% CI = -6.95, -4.21), respectively). There was an interaction between smoking and alcohol use such that among alcohol non-users, smoking was not related to GM volumes and among alcohol users, those who currently smoked had -12 cm³ smaller total GM, specifically in the frontal and temporal lobes, amygdala, cingulate, and insula. Results suggest a large-magnitude association between smoking and smaller GM volume at middle age, accounting for vascular, respiratory, and substance use/psychological factors, and that the association was strongest in alcohol users. Regions suggested to be most vulnerable are those where cognition and addiction processes overlap.

Dorsolateral prefrontal cortex volume as a mediator between socioeconomic status and executive function

OBJECTIVE

Lower socioeconomic status (SES) is related to poorer cognitive performance, but the neural underpinnings of this relation are not fully understood. This study examined whether SES-linked decrements in executive function were mediated by smaller dorsolateral prefrontal cortex (DLPFC) volumes. Given the literature demonstrating that SES-brain relations differ by race, we examined whether race moderated these mediations.

METHOD

Participants were 190 socioeconomically diverse, self-identified African American (AA) and White adults from the Healthy Aging in Neighborhoods of Diversity across the Life Span (HANDLS) SCAN study. Regional brain volumes were derived using T1-weighted MP-RAGE images. Adjusting for age and sex, moderated mediation analyses examined if the DLPFC mediated SES-executive function relations differently across racial groups. Executive function was measured using Trail Making Test part B (Trails B), Digit Span Backwards (DSB), and verbal fluency.

RESULTS

Moderated mediation demonstrated that DLPFC volume significantly mediated the association between SES and Trails B in Whites (lower confidence interval [CI] = 0.01; upper CI = 0.07), but not in AAs (lower CI = -0.05; upper CI = 0.01). No mediations were found for DSB or verbal fluency, although SES was related to all tests.

CONCLUSION

The DLPFC may be important in the association of SES and mental flexibility for White, but not AA adults. It is possible that the well-replicated advantages of high SES among Whites do not readily translate, on average, to AAs. These findings highlight the importance of brain volume for cognitive functioning, while adding to the literature on sociodemographic health disparities. (PsycINFO Database Record (c) 2018 APA, all rights reserved).

LATE: A Level-Set Method Based on Local Approximation of Taylor Expansion for Segmenting Intensity Inhomogeneous Images

Intensity inhomogeneity is common in real-world images and inevitably leads to many difficulties for accurate image segmentation. Numerous level-set methods have been proposed to segment images with intensity inhomogeneity. However, most of these methods are based on linear approximation, such as locally weighted mean, which may cause problems when handling images with severe intensity inhomogeneities. In this paper, we view segmentation of such images as a nonconvex optimization problem, since the intensity variation in such an image follows a nonlinear distribution. Then, we propose a novel level-set method named local approximation of Taylor expansion (LATE), which is a nonlinear approximation method to solve the nonconvex optimization problem. In LATE, we use the statistical information of the local region as a fidelity term and the differentials of intensity inhomogeneity as an adjusting term to model the approximation function. In particular, since the first-order differential is represented by the variation degree of intensity inhomogeneity, LATE can improve the approximation quality and enhance the local intensity contrast of images with severe intensity inhomogeneity. Moreover, LATE solves the optimization of function fitting by relaxing the constraint condition. In addition, LATE can be viewed as a constraint relaxation of classical methods, such as the region-scalable fitting model and the local intensity clustering model. Finally, the level-set energy functional is constructed based on the Taylor expansion approximation. To validate the effectiveness of our method, we conduct thorough experiments on synthetic and real images. Experimental results show that the proposed method clearly outperforms other solutions in comparison.

Efficient segmentation and correction model for brain MR images with level set framework based on basis functions

With the wide application of MR images to detect disease in human's brain deeply, the shortcomings of the technology are necessarily waiting to be solved. For example, MR images always show serious intensity inhomogeneity called the bias field, which may prevent to deduce exact analysis of images. To eliminate the distraction, many methods are proposed. Though experimental results already have stood for the advantages of those methods, there are still lots of problems that cannot be neglected, such as bad segmentation, wrong correction and over-correction which has not attracted much attention yet. Among all those methods, the multiplicative intrinsic component optimization (MICO) model influenced us more. Based on the MICO model and split Bregman method, in this paper, we put forward a new model to segment and correct bias field moderately and simultaneously for MR images. Then, we applied our model to a large quantity of MR images, and gained lots of expected results. For a better observation, we compared our model with the MICO model in both segmentation and bias correction results, it can be seen from the experimental results that our model has performed well for the challenging intensity inhomogeneity problems. Many good characteristics like accuracy, efficiency and robustness also have been exhibited in numerical results and comparisons with the MICO model.

Automated glioma detection and segmentation using graphical models

Glioma detection and segmentation is a challenging task for radiologists and clinicians. The research reported in this paper seeks to develop a better clinical decision support algorithm for clinicians diagnosis. This paper presents a probabilistic method for detection and segmentation between abnormal tissue regions and brain tumour (tumour core and edema) portions from Magnetic Resonance Imaging (MRI). A framework is constructed to learn structure of undirected graphical models that can represent the spatial relationships among variables and apply it to glioma segmentation. Compared with the pixel of image, the superpixel is more consistent with human visual cognition and contains less redundancy, thus, the superpixels are considered as the basic unit of structure learning and glioma segmentation scheme. ℓ1-regularization techniques are applied to learn the appropriate structure for modeling graphical models. Conditional Random Fields (CRF) are used to model the spatial interactions among image superpixel regions and their measurements. A number of features including statistics features, the combined features from the local binary pattern as well as gray level run length, curve features, and fractal features were extracted from each superpixel. The features are then passed by ℓ1-regularization to ensure a robust classification. The proposed method is compared with support vector machine and Fuzzy c-means to classify each superpixel into normal and abnormal tissue. The proposed system is tested for the presence of low grade as well as high grade glioma tumors on images collected from BRATS2013, BRATS2015 data set and Henan Provincial People's Hospital (HNPPH) data set. The experiments performed provides similarity between segmented and truth image up to 91.5% by correlation method.

A fast and reliable noise-resistant medical image segmentation and bias field correction model

In recent years, with the rapid development of modern medical image technology, the medical image processing technology is becoming more important. In particular, the accurate segmentation of medical images is significant for doctors to diagnose and analyze the etiology. However, the false contours appearing in medical images due to fuzzy image boundary, intensity inhomogeneity and random noise, may lead to the inaccurate segmentation results. In this paper, an improved active contour model based on global image information is proposed, which can accurately segment images disturbed by intensity inhomogeneities and serious noise. We give the two-phase energy functional and multi-phase energy functional of our model, and apply it to segment magnetic resonance (MR) images, ultrasound (US) images and synthetic images. Experimental results and comparisons with other models have shown that our model has the advantages of higher accuracy, higher efficiency and robustness in dealing with the intensity inhomogeneity and serious noise in image segmentation.

Multisite Machine Learning Analysis Provides a Robust Structural Imaging Signature of Schizophrenia Detectable Across Diverse Patient Populations and Within Individuals

Past work on relatively small, single-site studies using regional volumetry, and more recently machine learning methods, has shown that widespread structural brain abnormalities are prominent in schizophrenia. However, to be clinically useful, structural imaging biomarkers must integrate high-dimensional data and provide reproducible results across clinical populations and on an individual person basis. Using advanced multi-variate analysis tools and pooled data from case-control imaging studies conducted at 5 sites (941 adult participants, including 440 patients with schizophrenia), a neuroanatomical signature of patients with schizophrenia was found, and its robustness and reproducibility across sites, populations, and scanners, was established for single-patient classification. Analyses were conducted at multiple scales, including regional volumes, voxelwise measures, and complex distributed patterns. Single-subject classification was tested for single-site, pooled-site, and leave-site-out generalizability. Regional and voxelwise analyses revealed a pattern of widespread reduced regional gray matter volume, particularly in the medial prefrontal, temporolimbic and peri-Sylvian cortex, along with ventricular and pallidum enlargement. Multivariate classification using pooled data achieved a cross-validated prediction accuracy of 76% (AUC = 0.84). Critically, the leave-site-out validation of the detected schizophrenia signature showed accuracy/AUC range of 72-77%/0.73-0.91, suggesting a robust generalizability across sites and patient cohorts. Finally, individualized patient classifications displayed significant correlations with clinical measures of negative, but not positive, symptoms. Taken together, these results emphasize the potential for structural neuroimaging data to provide a robust and reproducible imaging signature of schizophrenia. A web-accessible portal is offered to allow the community to obtain individualized classifications of magnetic resonance imaging scans using the methods described herein.