3D Magnetic Resonance Imaging Research Articles

Comparison of T2-Weighted 3D-Space and T2-Weighted 2D-TSE Sequences in Lumbar Spine Magnetic Resonance Imaging (MRI)

Background: Spine-related issues like low back pain have substantially increased in the past few decades across all age categories having various reasons. Objectives: To compare the image quality and diagnostic value of 3D space MRI sequence with 2D TSE MRI sequence in lumbar spine imaging. Methods: Fifty patients, irrespective of gender having age between 30-70 years, who presented with lower back pain were enrolled for the study. Lumbar spine imaging was done using 2D TSE and 3D space sequences and the subsequent images were evaluated by two senior consultant radiologists for qualitative analysis of visibility and pathologic indices of both sequences. Data was analyzed on SPSS 25.0. Statistical analysis was done using Cohen's kappa (k). Results: Female participants were 56% of total study population. Mean age of study participants found to be 53.62±10.76 years. Statistically significant difference (p-value =0.000) was noted for visibility score of all the lumbar spine components, when the 3D SPACE and 2D TSE images were compared with 3D-SPACE images found being superior in visibility. Inter- observer agreement for visibility of various regions of lumber spine was nearly perfect (k> 0.8) and substantial (0.6 to 0.8) for 3D-SPACE, while substantial (0.8<k> 0.6) for 2D-TSE. Pathologic indexes had a significant level of inter-observer agreement (k > 0.6). Inter-observer agreement for 3D sequence (k = 0.72) was greater than that for 2D-TSE sequence (k = 0.64). Conclusion: Images from 3D-SPACE sequences provide superior visibility over 2D-TSE and could be recommended as alternative imaging method for lumbar spine pathologies. Higher inter observer agreement illustrate that it may be included in routine sequences to make the better diagnosis for lumbar spine pathologies correctly.

Collaborative Learning for Annotation-Efficient Volumetric MR Image Segmentation.

Deep learning has presented great potential in accurate MR image segmentation when enough labeled data are provided for network optimization. However, manually annotating three-dimensional (3D) MR images is tedious and time-consuming, requiring experts with rich domain knowledge and experience. To build a deep learning method exploring sparse annotations, namely only a single two-dimensional slice label for each 3D training MR image. Retrospective. Three-dimensional MR images of 150 subjects from two publicly available datasets were included. Among them, 50 (1377 image slices) are for prostate segmentation. The other 100 (8800 image slices) are for left atrium segmentation. Five-fold cross-validation experiments were carried out utilizing the first dataset. For the second dataset, 80 subjects were used for training and 20 were used for testing. 1.5 T and 3.0 T; axial T2-weighted and late gadolinium-enhanced, 3D respiratory navigated, inversion recovery prepared gradient echo pulse sequence. A collaborative learning method by integrating the strengths of semi-supervised and self-supervised learning schemes was developed. The method was trained using labeled central slices and unlabeled noncentral slices. Segmentation performance on testing set was reported quantitatively and qualitatively. Quantitative evaluation metrics including boundary intersection-over-union (B-IoU), Dice similarity coefficient, average symmetric surface distance, and relative absolute volume difference were calculated. Paired t test was performed, and P < 0.05 was considered statistically significant. Compared to fully supervised training with only the labeled central slice, mean teacher, uncertainty-aware mean teacher, deep co-training, interpolation consistency training (ICT), and ambiguity-consensus mean teacher, the proposed method achieved a substantial improvement in segmentation accuracy, increasing the mean B-IoU significantly by more than 10.0% for prostate segmentation (proposed method B-IoU: 70.3% ± 7.6% vs. ICT B-IoU: 60.3% ± 11.2%) and by more than 6.0% for left atrium segmentation (proposed method B-IoU: 66.1% ± 6.8% vs. ICT B-IoU: 60.1% ± 7.1%). A collaborative learning method trained using sparse annotations can segment prostate and left atrium with high accuracy. 0 TECHNICAL EFFICACY: Stage 1.

Diagnostic Performance of Magnetic Resonance Imaging for Parathyroid Localization of Primary Hyperparathyroidism: A Systematic Review.

Accurate preoperative localization is crucial for successful minimally invasive parathyroidectomy in primary hyperparathyroidism (PHPT). Preoperative localization can be challenging in patients with recurrent and/or multigland disease (MGD). This has led clinicians to investigate multiple imaging techniques, most of which are associated with radiation exposure. Magnetic resonance imaging (MRI) offers ionizing radiation-free and accurate imaging, making it an attractive alternative imaging modality. The objective of this systematic review is to provide an overview of the diagnostic performance of MRI in the localization of PHPT. PubMed and Embase libraries were searched from 1 January 2000 to 31 March 2023. Studies were included that investigated MRI techniques for the localization of PHPT. The exclusion criteria were (1) secondary/tertiary hyperparathyroidism, (2) studies that provided no diagnostic performance values, (3) studies published before 2000, and (4) studies using 0.5 Tesla MRI scanners. Twenty-four articles were included in the systematic review, with a total of 1127 patients with PHPT. In 14 studies investigating conventional MRI for PHPT localization, sensitivities varied between 39.1% and 94.3%. When employing more advanced MRI protocols like 4D MRI for PHPT localization in 11 studies, sensitivities ranged from 55.6% to 100%. The combination of MR imaging with functional techniques such as 18F-FCH-PET/MRI yielded the highest diagnostic accuracy, with sensitivities ranging from 84.2% to 100% in five studies. Despite the limitations of the available evidence, the results of this review indicate that the combination of MR imaging with functional imaging techniques such as 18F-FCH-PET/MRI yielded the highest diagnostic accuracy. Further research on emerging MR imaging modalities, such as 4D MRI and PET/MRI, is warranted, as MRI exposes patients to minimal or no ionizing radiation compared to other imaging modalities.

MLC: Multi-level consistency learning for semi-supervised left atrium segmentation

Atrial fibrillation is the most common type of arrhythmia associated with a high mortality rate. Left atrium segmentation is crucial for the diagnosis and treatment of atrial fibrillation. Accurate left atrium segmentation with limited labeled data is a tricky problem. In this paper, a novel multi-level consistency semi-supervised learning method is proposed for left atrium segmentation from 3D magnetic resonance images. The proposed framework can efficiently utilize limited labeled data and large amounts of unlabeled data by performing consistency predictions under task level, data level, and feature level perturbations. For task consistency, the segmentation results and signed distance maps were used for both segmentation and distance estimation tasks. For data level perturbation, random flips (horizontal or vertical) were introduced for unlabeled data. Moreover, based on virtual adversarial training, we design a multi-layer feature perturbation in the structure of skipping connection. Our method is evaluated on the publicly available Left Atrium Segmentation Challenge dataset version 2018. For the model trained with a label rate of 20%, the evaluation metrics Dice, Jaccard, ASD, and 95HD are 91.69%, 84.71%, 1.43 voxel, and 5.44 voxel, respectively. The experimental results show that the proposed method outperforms other semi-supervised learning methods and even achieves better performance than the fully supervised V-Net.

Determination of internal target volume with Cine-MRI sequence for prostate MRI-Guided radiotherapy.

In prostate radiotherapy, the intrafractional target motion negatively affects treatment accuracy. Generating internal target volume (ITV) using four-dimensional (4D) images may resolve the issue of intrafractional target motion induced by bladder filling and bowel movement. However, no 4D imaging techniques suitable for the prostate are currently available in clinical practice. This study aimed to determine the ITV based on cine magnetic resonance imaging (MRI) sequence for intrafractional target motion management in prostate MRI-guided radiotherapy. A reference ITV was generated in simulation process. Then, the reference ITV was adapted with cine MRI sequence before online planning in each fraction. Finally, the reference ITV was updated with the cine MRI sequence acquired during beam delivery after each fraction. Cine MRI sequences and positioning three-dimensional (3D) MRI from 35 patients were retrospectively collected. Clinical target volume (CTV) coverage was computed according to the two-dimensional contour of CTV and ITV on cine MRI images. Relative target size was calculated as the ratio of the volume of ITV and CTV. Isotropic planning target volume (PTV; 5mm margin) and anisotropic PTV (3mm margin in the posterior direction and 5mm margin in other directions) were generated for comparison. The CTV coverage rate of the proposed ITV had a mean value of 98.61%±0.51%, whereas the CTV coverage rates of the isotropic and anisotropic PTVs were 97.43%±0.41% and 96.58%±0.73%, respectively. The proposed ITV had a relative target size of 1.79±0.17, whereas the anisotropic and isotropic PTVs had relative target sizes of 1.92±0.12 and 2.21±0.19, respectively. For both the CTV coverage rate and target relative size, significant differences were observed between the proposed ITV and the other two PTVs (p<0.05). The ITV achieved higher CTV coverage with smaller size than conventional isotropic and anisotropic PTVs, indicating that it can effectively deal with the intrafractional movement of the prostate.

Feasibility of abdominal fat quantification on MRI and impact on effectiveness of abdominal compression for radiotherapy motion management

The impact of fat on abdominal compression effectiveness in abdominal cancers was determined using magnetic resonance imaging (MRI). Visceral and subcutaneous fat were delineated on T2W 3D MRI, and motion change with compression was measured on 2D cine MRI. Results from 16 participants showed no correlation between fat percentage, body mass index (BMI), and motion change. Median BMI was 28.7 (SD, 4.9). Mean motion reduction was 7.8 mm (IQR, 5.0; p = 0.001) with compression. While no direct link was found between fat, BMI, and compression effectiveness, abdominal compression remains crucial for motion management in radiotherapy planning, providing dosimetric benefits.

Regression of the Rician Noise Level in 3D Magnetic Resonance Images from the Distribution of the First Significant Digit

This paper investigates the distribution characteristics of Fourier, discrete cosine, and discrete sine transform coefficients in T1 MRI images. This paper reveals their adherence to Benford’s law, characterized by a logarithmic distribution of first digits. The impact of Rician noise on the first digit distribution is examined, which causes deviations from the ideal distribution. A novel methodology is proposed for noise level estimation, employing metrics such as the Bhattacharyya distance, Kullback–Leibler divergence, total variation distance, Hellinger distance, and Jensen–Shannon divergence. Supervised learning techniques utilize these metrics as regressors. Evaluations on MRI scans from several datasets coming from a wide range of different acquisition devices of 1.5 T and 3 T, comprising hundreds of patients, validate the adherence of noiseless T1 MRI frequency domain coefficients to Benford’s law. Through rigorous experimentation, our methodology has demonstrated competitiveness with established noise estimation techniques, even surpassing them in numerous conducted experiments. This research empirically supports the application of Benford’s law in transforms, offering a reliable approach for noise estimation in denoising algorithms and advancing image quality assessment.

3D reconstruction of the uterus and automatic segmentation of the uterine cavity on 3D magnetic resonance imaging: A preliminary study

PurposeTo determine the differences in 3D shape features between septate uterus (SU) and normal uterus and to train a network to automatically delineate uterine cavity on 3D magnetic resonance imaging (MRI). MethodsA total of 43 patients (22 cases of partial septate uterus and 21 cases of complete septate uterus) were included in the experimental group. Nine volunteers were recruited as a control group. The uterine cavity (UC), myometrium (UM), and cervical canal of the uterus were segmented manually using ITK-SNAP software. The three-dimensional shape features of the UC and UM were extracted by using PyRadiomics. The recurrent saliency transformation network (RSTN) method was used to segment the UC. ResultsThe values of four 3D shape features were significantly lower in the control group than in the partial septate group and the complete septate group, while the values of two features were significantly higher (p < 0.05). The UCs of the three groups were significantly different in terms of flatness and sphericity. The values of six features were significantly lower in the UMs of the control group than in those of the partial septate group and the complete septate group (p < 0.05). After the deep learning networks were trained, the Dice similarity coefficient (DSC) scores of the four folds for different thresholds were all over 80 %. The average volume ratio between predictions and manual segmentation was 101.2 %. ConclusionsBased on 3D reconstruction, 3D shape features can be used to comprehensively evaluate septate uterus and provide a reference for subsequent research. The UC can be automatically segmented on 3D MRI using the RSTN method.

Brain Age Prediction Using 2D Projections Based on Higher-Order Statistical Moments and Eigenslices from 3D Magnetic Resonance Imaging Volumes.

Brain age prediction from 3D MRI volumes using deep learning has recently become a popular research topic, as brain age has been shown to be an important biomarker. Training deep networks can be very computationally demanding for large datasets like the U.K. Biobank (currently 29,035 subjects). In our previous work, it was demonstrated that using a few 2D projections (mean and standard deviation along three axes) instead of each full 3D volume leads to much faster training at the cost of a reduction in prediction accuracy. Here, we investigated if another set of 2D projections, based on higher-order statistical central moments and eigenslices, leads to a higher accuracy. Our results show that higher-order moments do not lead to a higher accuracy, but that eigenslices provide a small improvement. We also show that an ensemble of such models provides further improvement.

DIR3D: Cascaded Dual-Domain Inter-Scale Mutual Reinforcement 3D Network for highly accelerated 3D MR image reconstruction

Deep Learning has been successfully applied to reconstruct Magnetic Resonance (MR) images from undersampled k-space data to achieve the acceleration of MRI. However, most existing works focused on 2D MRI scans and perform reconstruction in a slice-by-slice manner due to the tremendous computation and memory cost of 3D MRI reconstruction, resulting in a blank in the research of 3D MRI acceleration. Providing more accurate and diagnostic information, 3D MRI requires excessively long scan time. To accelerate 3D MRI, in this work, we design a lightweight and powerful cascaded 3D network DIR3D utilizing a previously proposed computation-friendly data processing strategy. Specifically, we propose an efficient block called Dual-Domain Inter-Scale Mutual Reinforcement Block (DIRB) to fuse multi-scale features locally and globally with neglectable computation and memory costs, which enhances the representative ability of the network. To allow more flexibility, we further redesign the commonly used Data Consistency (DC) layer by introducing a learnable adaptor which enables the network to perform point-wise adaptive merge of the reconstructed and sampled k-space data while ensuring data consistency. We conduct comprehensive experiments on the Stanford MRIData and evaluate our DIR3D from multiple perspectives. When achieving the same acceleration factors, our proposed DIR3D consistently outperforms other state-of-the-art 2D methods at multiple subsampling masks, especially for highly undersampled data, which provides strong evidence for the superiority of our DIR3D for 3D MRI acceleration. Additionally, at the inference stage, our DIR3D can achieve a much higher reconstruction efficiency.

Improvement of 2D cine image quality using 3D priors and cycle generative adversarial network for low field MRI-guided radiation therapy.

Cine magnetic resonance (MR) images have been used for real-time MR guided radiation therapy (MRgRT). However, the onboard MR systems with low-field strength face the problem of limited image quality. To improve the quality of cine MR images in MRgRT using prior image information provided by the patient planning and positioning MR images. This study employed MR images from 18 pancreatic cancer patients who received MR-guided stereotactic body radiation therapy. Planning 3D MR images were acquired during the patient simulation, and positioning 3D MR images and 2D sagittal cine MR images were acquired before and during the beam delivery, respectively. A deep learning-based framework consisting of two cycle generative adversarial networks (CycleGAN), Denoising CycleGAN and Enhancement CycleGAN, was developed to establish the mapping between the 3D and 2D MR images. The Denoising CycleGAN was trained to first denoise the cine images using the time domain cine image series, and the Enhancement CycleGAN was trained to enhance the spatial resolution and contrast by taking advantage of the prior image information from the planning and positioning images. The denoising performance was assessed by signal-to-noise ratio (SNR), structural similarity index measure, peak SNR, blind/reference-less image spatial quality evaluator (BRISQUE), natural image quality evaluator, and perception-based image quality evaluator scores. The quality enhancement performance was assessed by the BRISQUE and physician visual scores. In addition, the target contouring was evaluated on the original and processed images. Significant differences were found for all evaluation metrics after Denoising CycleGAN processing. The BRISQUE and visual scores were also significantly improved after sequential Denoising and Enhancement CycleGAN processing. In target contouring evaluation, Dice similarity coefficient, centroid distance, Hausdorff distance, and average surface distance values were significantly improved on the enhanced images. The whole processing time was within 20ms for a typical input image size of 512 × 512. Taking advantage of the prior high-quality positioning and planning MR images, the deep learning-based framework enhanced the cine MR image quality significantly, leading to improved accuracy in automatic target contouring. With the merits of both high computational efficiency and considerable image quality enhancement, the proposed method may hold important clinical implication for real-time MRgRT.

Elmukashfi’s Protocol for Hippocampal Volumetry; 2022

There is a relation between many neuropsychiatric disorders and reduction in hippocampal volume. So, a protocol for researches in this area is highly needed. Study aimed to design and validate a protocol for hippocampal volumetry to facilitate manual segmentation of hippocampus region. It was a comparative study, carried at Diagnostic Imaging Clinic at Elmoalem Hospital; where 65 Sudanese individuals were surveyed in period (December 2021 –April 2022). Data was collected through master sheet for sociodemographic information, 3D magnetic resonance imaging for measuring hippocampus volume, and imaging acquisition. Software for measurements 3D slicer version (4.11) was used, where hippocampus is mapped by delineating its boundaries. Protocol was composed of mapping hippocampus. Mapping hippocampus: identify sagittal view, lateral fissure, temporal horn of lateral ventricle, hippocampus region, temporal and occipital horn of lateral ventricle, choroid plexus of lateral ventricle. Among these slides hippocampus has been delineated. Statistical Computing: Data was analyzed using SPSS version 23. Reliability test was performed by obtaining Cronbach’s alpha. Protocol considered reliable if value of Cronbach’s alpha is close to (+1). P-value ≤ 0.05 was considered statistically significant. Validation of Protocol: Calculation of hippocampus volume is valid as total volume correlates strongly with both right and left measurements (correlation coefficient 0.76 and 0.87 respectively and p-value &lt;0.001). Reliability test was 0.85; which was close to (+1). Conclusion and recommendation: This protocol represents a valid, reliable, and applicable method for measuring hippocampal volume. It could be a step to develop an international standard protocol for hippocampal volumetry.

Volumetric MRI with sparse sampling for MR-guided 3D motion tracking via sparse prior-augmented implicit neural representation learning.

Volumetric reconstruction of magnetic resonance imaging (MRI) from sparse samples is desirable for 3D motion tracking and promises to improve magnetic resonance (MR)-guided radiation treatment precision. Data-driven sparse MRI reconstruction, however, requires large-scale training datasets for prior learning, which is time-consuming and challenging to acquire in clinical settings. To investigate volumetric reconstruction of MRI from sparse samples of two orthogonal slices aided by sparse priors of two static 3D MRI through implicit neural representation (NeRP) learning, in support of 3D motion tracking during MR-guided radiotherapy. A multi-layer perceptron network was trained to parameterize the NeRP model of a patient-specific MRI dataset, where the network takes 4D data coordinates of voxel locations and motion states as inputs and outputs corresponding voxel intensities. By first training the network to learn the NeRP of two static 3D MRI with different breathing motion states, prior information of patient breathing motion was embedded into network weights through optimization. The prior information was then augmented from two motion states to 31 motion states by querying the optimized network at interpolated and extrapolated motion state coordinates. Starting from the prior-augmented NeRP model as an initialization point, we further trained the network to fit sparse samples of two orthogonal MRI slices and the final volumetric reconstruction was obtained by querying the trained network at 3D spatial locations. We evaluated the proposed method using 5-min volumetric MRI time series with 340ms temporal resolution for seven abdominal patients with hepatocellular carcinoma, acquired using golden-angle radial MRI sequence and reconstructed through retrospective sorting. Two volumetric MRI with inhale and exhale states respectively were selected from the first 30s of the time series for prior embedding and augmentation. The remaining 4.5-min time series was used for volumetric reconstruction evaluation, where we retrospectively subsampled each MRI to two orthogonal slices and compared model-reconstructed images to ground truth images in terms of image quality and the capability of supporting 3D target motion tracking. Across the seven patients evaluated, the peak signal-to-noise-ratio between model-reconstructed and ground truth MR images was 38.02±2.60dB and the structure similarity index measure was 0.98±0.01. Throughout the 4.5-min time period, gross tumor volume (GTV) motion estimated by deforming a reference state MRI to model-reconstructed and ground truth MRI showed good consistency. The 95-percentile Hausdorff distance between GTV contours was 2.41±0.77mm, which is less than the voxel dimension. The mean GTV centroid position difference between ground truth and model estimation was less than 1mm in all three orthogonal directions. A prior-augmented NeRP model has been developed to reconstruct volumetric MRI from sparse samples of orthogonal cine slices. Only one exhale and one inhale 3D MRI were needed to train the model to learn prior information of patient breathing motion for sparse image reconstruction. The proposed model has the potential of supporting 3D motion tracking during MR-guided radiotherapy for improved treatment precision and promises a major simplification of the workflow by eliminating the need for large-scale training datasets.

Automatic Quantification of Normal Brain Gyrification Patterns and Changes in Fetuses with Polymicrogyria and Lissencephaly Based on MRI.

The current imaging assessment of fetal brain gyrification is performed qualitatively and subjectively using sonography and MR imaging. A few previous studies have suggested methods for quantification of fetal gyrification based on 3D reconstructed MR imaging, which requires unique data and is time-consuming. In this study, we aimed to develop an automatic pipeline for gyrification assessment based on routinely acquired fetal 2D MR imaging data, to quantify normal changes with gestation, and to measure differences in fetuses with lissencephaly and polymicrogyria compared with controls. We included coronal T2-weighted MR imaging data of 162 fetuses retrospectively collected from 2 clinical sites: 134 controls, 12 with lissencephaly, 13 with polymicrogyria, and 3 with suspected lissencephaly based on sonography, yet with normal MR imaging diagnoses. Following brain segmentation, 5 gyrification parameters were calculated separately for each hemisphere on the basis of the area and ratio between the contours of the cerebrum and its convex hull. Seven machine learning classifiers were evaluated to differentiate control fetuses and fetuses with lissencephaly or polymicrogyria. In control fetuses, all parameters changed significantly with gestational age (P < .05). Compared with controls, fetuses with lissencephaly showed significant reductions in all gyrification parameters (P ≤ .02). Similarly, significant reductions were detected for fetuses with polymicrogyria in several parameters (P ≤ .001). The 3 suspected fetuses showed normal gyrification values, supporting the MR imaging diagnosis. An XGBoost-linear algorithm achieved the best results for classification between fetuses with lissencephaly and control fetuses (n = 32), with an area under the curve of 0.90 and a recall of 0.83. Similarly, a random forest classifier showed the best performance for classification of fetuses with polymicrogyria and control fetuses (n = 33), with an area under the curve of 0.84 and a recall of 0.62. This study presents a pipeline for automatic quantification of fetal brain gyrification and provides normal developmental curves from a large cohort. Our method significantly differentiated fetuses with lissencephaly and polymicrogyria, demonstrating lower gyrification values. The method can aid radiologic assessment, highlight fetuses at risk, and may improve early identification of fetuses with cortical malformations.

Robust U-Net-Based Approach for Accurate Brain Tumor Segmentation Using Multimodal MRI Data

Detecting and quantifying the extent of brain tumors poses a formidable challenge in medical centers. Magnetic Resonance Imaging (MRI) has developed as a non-invasive brain cancers' primary diagnostic tool, offering the crucial advantage of avoiding ionizing radiation. Brain tumor manually segmented boundaries within 3D MRI volumes is an exceedingly time-intensive task, heavily reliant on operator expertise. Among brain tumors, gliomas stand out as the prevalent and highly malignant, significantly impacting patients' life expectancy, particularly at their highest grade. Recognizing the pressing need for a reliable, completely automatic segmentation technique to efficiently assess tumor extent, this study introduces a robust approach. A completely automated brain tumor segmentation method is proposed, leveraging U-Net-based deep convolutional networks. This approach underwent rigorous evaluation on the Multimodal Brain Tumor Image Segmentation BraTS-19 dataset a widely recognized medical image analysis dataset featuring multimodal MRI scans of brain tumors, including glioblastoma, anaplastic astrocytoma, and lower-grade glioma, coupled with corresponding manual tumor segmentations. This dataset serves as a pivotal resource for advancing automatic brain tumor segmentation techniques and assessing their performance using metrics like the Dice score, which achieved 92% for entire tumor. Cross-validation results affirm the efficiency and promise of our method in achieving accurate segmentation.

3D isotropic MRI of ankle: review of literature with comparison to 2D MRI.

The ankle joint has complex anatomy with different tissue structures and is commonly involved in traumatic injuries. Magnetic resonance imaging (MRI) is the primary imaging modality used to assess the soft tissue structures around the ankle joint including the ligaments, tendons, and articular cartilage. Two-dimensional (2D) fast spin echo/turbo spin echo (FSE/TSE) sequences are routinely used for ankle joint imaging. While the 2D sequences provide a good signal-to-noise ratio (SNR) and contrast-to-noise ratio (CNR) with high spatial resolution, there are some limitations to their use owing to the thick slices, interslice gaps leading to partial volume effects, limited fluid contrast, and the need to acquire separate images in different orthogonal planes. The 3D MR imaging can overcome these limitations and recent advances have led to technical improvements that enable its widespread clinical use in acceptable time periods. The volume imaging renders the advantage of reconstructing into thin continuous slices with isotropic voxels enabling multiplanar reconstructions that helps in visualizing complex anatomy of the structure of interest throughout their course with improved sharpness, definition of anatomic variants, and fluid conspicuity of lesions and injuries. Recent advances have also reduced the acquisition time of the 3D datasets making it more efficient than 2D sequences. This article reviews the recent technical developments in the domain 3D MRI, compares imaging with 3D versus 2D sequences, and demonstrates the use-case scenarios with interesting cases, and benefits of 3D MRI in evaluating various ankle joint components and their lesions.

Joint learning framework of cross-modal synthesis and diagnosis for Alzheimer’s disease by mining underlying shared modality information

Alzheimer’s disease (AD) is one of the most common neurodegenerative disorders presenting irreversible progression of cognitive impairment. How to identify AD as early as possible is critical for intervention with potential preventive measures. Among various neuroimaging modalities used to diagnose AD, functional positron emission tomography (PET) has higher sensitivity than structural magnetic resonance imaging (MRI), but it is also costlier and often not available in many hospitals. How to leverage massive unpaired unlabeled PET to improve the diagnosis performance of AD from MRI becomes rather important. To address this challenge, this paper proposes a novel joint learning framework of unsupervised cross-modal synthesis and AD diagnosis by mining underlying shared modality information, improving the AD diagnosis from MRI while synthesizing more discriminative PET images. We mine underlying shared modality information in two aspects: diversifying modality information through the cross-modal synthesis network and locating critical diagnosis-related patterns through the AD diagnosis network. First, to diversify the modality information, we propose a novel unsupervised cross-modal synthesis network, which implements the inter-conversion between 3D PET and MRI in a single model modulated by the AdaIN module. Second, to locate shared critical diagnosis-related patterns, we propose an interpretable diagnosis network based on fully 2D convolutions, which takes either 3D synthesized PET or original MRI as input. Extensive experimental results on the ADNI dataset show that our framework can synthesize more realistic images, outperform the state-of-the-art AD diagnosis methods, and have better generalization on external AIBL and NACC datasets.

An attention 3DUNET and visual geometry group-19 based deep neural network for brain tumor segmentation and classification from MRI

There has been an abrupt increase in brain tumor (BT) related medical cases during the past ten years. The tenth most typical type of tumor affecting millions of people is the BT. The cure rate can, however, rise if it is found early. When evaluating BT diagnosis and treatment options, MRI is a crucial tool. However, segmenting the tumors from magnetic resonance (MR) images is complex. The advancement of deep learning (DL) has led to the development of numerous automatic segmentation and classification approaches. However, most need improvement since they are limited to 2D images. So, this article proposes a novel and optimal DL system for segmenting and classifying the BTs from 3D brain MR images. Preprocessing, segmentation, feature extraction, feature selection, and tumor classification are the main phases of the proposed work. Preprocessing, such as noise removal, is performed on the collected brain MR images using bilateral filtering. The tumor segmentation uses spatial and channel attention-based three-dimensional u-shaped network (SC3DUNet) to segment the tumor lesions from the preprocessed data. After that, the feature extraction is done based on dilated convolution-based visual geometry group-19 (DCVGG-19), making the classification task more manageable. The optimal features are selected from the extracted feature sets using diagonal linear uniform and tangent flight included butterfly optimization algorithm. Finally, the proposed system applies an optimal hyperparameters-based deep neural network to classify the tumor classes. The experiments conducted on the BraTS2020 dataset show that the suggested method can segment tumors and categorize them more accurately than the existing state-of-the-art mechanisms. Communicated by Ramaswamy H. Sarma

Using 3D MRI Bone Shape to Predict Pre-Osteoarthritis of the Knee 2 Years After Anterior Cruciate Ligament Reconstruction

Background: Anterior cruciate ligament (ACL) injury increases risks for osteoarthritis (OA), a poorly modifiable and disabling condition. Joint changes of potentially reversible pre-OA have been described just 2 years after ACL reconstruction (ACLR) when early bone shape changes have also been reported. Purpose: This study evaluates relationships between interlimb differences in tibiofemoral bone shape derived from statistical shape modeling (SSM) of magnetic resonance imaging (MRI) and participant factors on patient-reported outcomes 2 years after unilateral ACLR. Study Design: Cross-sectional study; Level of evidence, 3. Methods: SSM-derived tibiofemoral bone shape and subchondral bone area were assessed from bilateral knee MRI scans of 72 participants with unilateral ACLR (mean age, 34 ± 11 years; 32 women) and compared with a reference cohort of 398 older individuals without OA (mean age, 50 ± 3 years; 213 women). Multivariable logistic regression models examined relationships between participant and surgical factors with interlimb differences in bone shapes or subchondral bone areas. Relationships between patient-reported outcomes and the interlimb differences in bone shape and subchondral area were examined using similar models. Results: Bone shape scores and subchondral bone areas were greater (more OA-like) in ACLR knees than uninjured contralateral knees in every bone metric tested (P≤ .001). Interlimb differences in femur shape scores of participants with ACLR were 65% greater (P < .001) than those of the significantly older reference cohort. Taller height, medial meniscal tears, and decreasing age were associated with larger interlimb differences in shape scores and subchondral areas (P < .05). Bone–patellar tendon–bone (BPTB) autograft recipients demonstrated greater interlimb subchondral area differences compared with allograft recipients (P < .05). Interlimb differences for hamstring autograft recipients did not differ from those with BPTB or allograft. Greater interlimb differences in medial femur subchondral areas were associated with worse patient-reported Knee injury and Osteoarthritis Outcome Score Symptoms (R = 0.27; P = .040). Conclusion: Even in the absence of radiographic OA, just 2 years after unilateral ACLR patients showed greater bone shape scores and subchondral areas consistent with pre-OA in their ACLR knees. Furthermore, greater medial femur bone areas were weakly associated with worse symptoms. Patients who are younger, are taller, have meniscal tears, or have BPTB grafts may be at increased risk for bony asymmetries 2 years after ACLR.

Retracted: Using Convolutional Neural Networks for Segmentation of Multiple Sclerosis Lesions in 3D Magnetic Resonance Imaging

Retracted: Using Convolutional Neural Networks for Segmentation of Multiple Sclerosis Lesions in 3D Magnetic Resonance Imaging