Accurate and robust segmentation of cerebral vasculature on four-dimensional arterial spin labeling magnetic resonance angiography using machine-learning approach

Segmentation of cerebral vasculature on MR vascular images is of great significance for clinical application and research. However, the existing cerebrovascular segmentation approaches are limited due to insufficient image contrast and complicated algorithms. This study aims to explore the potential of the emerging four-dimensional arterial spin labeling magnetic resonance angiography (4D ASL-MRA) technique for fast and accurate cerebrovascular segmentation with a simple machine-learning approach. Nine temporal features were extracted from the intensity-time signal of each voxel, and eight spatial features from the neighboring voxels. Then, the unsupervised outlier detection algorithm, i.e. Isolation Forest, is used for segmentation of the vascular voxels based on the extracted features. The total length of the centerlines of the intracranial arterial vasculature, the dice similarity coefficient (DSC), and the average Hausdorff Distance (AVGHD) on the cross-sections of small- to large-sized vessels were calculated to evaluate the performance of the segmentation approach on 4D ASL-MRA of 18 subjects. Experiments show that the temporal information on 4D ASL-MRA can largely improve the segmentation performance. In addition, the proposed segmentation approach outperforms the traditional methods that were performed on the 3D image (i.e. the temporal average intensity projection of 4D ASL-MRA) and the previously proposed frame-wise approach. In conclusion, this study demonstrates that accurate and robust segmentation of cerebral vasculature is achievable on 4D ASL-MRA by using a simple machine-learning approach with appropriate features.

Deep learning-based 3D cerebrovascular segmentation workflow on bright and black blood sequences magnetic resonance angiography

BACKGROUND

Cerebrovascular diseases have emerged as significant threats to human life and health. Effectively segmenting brain blood vessels has become a crucial scientific challenge. We aimed to develop a fully automated deep learning workflow that achieves accurate 3D segmentation of cerebral blood vessels by incorporating classic convolutional neural networks (CNNs) and transformer models.

METHODS

We used a public cerebrovascular segmentation dataset (CSD) containing 45 volumes of 1.5 T time-of-flight magnetic resonance angiography images. We collected data from another private middle cerebral artery (MCA) with lenticulostriate artery (LSA) segmentation dataset (MLD), which encompassed 3.0 T three-dimensional T1-weighted sequences of volumetric isotropic turbo spin echo acquisition MRI images of 107 patients aged 62 ± 11 years (42 females). The workflow includes data analysis, preprocessing, augmentation, model training with validation, and postprocessing techniques. Brain vessels were segmented using the U-Net, V-Net, UNETR, and SwinUNETR models. The model performances were evaluated using the dice similarity coefficient (DSC), average surface distance (ASD), precision (PRE), sensitivity (SEN), and specificity (SPE).

RESULTS

During 4-fold cross-validation, SwinUNETR obtained the highest DSC in each fold. On the CSD test set, SwinUNETR achieved the best DSC (0.853), PRE (0.848), SEN (0.860), and SPE (0.9996), while V-Net achieved the best ASD (0.99). On the MLD test set, SwinUNETR demonstrated good MCA segmentation performance and had the best DSC, ASD, PRE, and SPE for segmenting the LSA.

CONCLUSIONS

The workflow demonstrated excellent performance on different sequences of MRI images for vessels of varying sizes. This method allows doctors to visualize cerebrovascular structures.

CRITICAL RELEVANCE STATEMENT

A deep learning-based 3D cerebrovascular segmentation workflow is feasible and promising for visualizing cerebrovascular structures and monitoring cerebral small vessels, such as lenticulostriate arteries.

KEY POINTS

• The proposed deep learning-based workflow performs well in cerebrovascular segmentation tasks. • Among comparison models, SwinUNETR achieved the best DSC, ASD, PRE, and SPE values in lenticulostriate artery segmentation. • The proposed workflow can be used for different MR sequences, such as bright and black blood imaging.

Integration- and separation-aware adversarial model for cerebrovascular segmentation from TOF-MRA

PURPOSE

Cerebrovascular segmentation from time-of-flight magnetic resonance angiography (TOF-MRA) is important but challenging for the simulation and measurement of cerebrovascular diseases. Recently, deep learning has promoted the rapid development of cerebrovascular segmentation. However, model optimization relies on voxel or regional punishment and lacks global awareness and interpretation from the texture and edge. To overcome the limitations of the existing methods, we propose a new cerebrovascular segmentation method to obtain more refined structures.

METHODS

In this paper, we propose a new adversarial model that achieves segmentation using segmentation model and filters the results using discriminator. Considering the sample imbalance in cerebrovascular imaging, we separated the TOF-MRA images and utilized high- and low-frequency images to enhance the texture and edge representation. The encoder weight sharing from the segmentation model not only saves the model parameters, but also strengthens the integration and separation correlation. Diversified discrimination enhances the robustness and regularization of the model.

RESULTS

The adversarial model was tested using two cerebrovascular datasets. It scored 82.26% and 73.38%, respectively, ranking first on both datasets. The results show that our method not only outperforms the recent cerebrovascular segmentation model, but also surpasses the common adversarial models.

CONCLUSION

Our adversarial model focuses on improving the extraction ability of the model on texture and edge, thereby achieving awareness of the global cerebrovascular topology. Therefore, we obtained an accurate and robust cerebrovascular segmentation. This framework has potential applications in many imaging fields, particularly in the application of sample imbalance. Our code is available at the website https://github.com/MontaEllis/ISA-model.

All answers are in the images: A review of deep learning for cerebrovascular segmentation

Cerebrovascular imaging is a common examination. Its accurate cerebrovascular segmentation become an important auxiliary method for the diagnosis and treatment of cerebrovascular diseases, which has received extensive attention from researchers. Deep learning is a heuristic method that encourages researchers to derive answers from the images by driving datasets. With the continuous development of datasets and deep learning theory, it has achieved important success for cerebrovascular segmentation. Detailed survey is an important reference for researchers. To comprehensively analyze the newest cerebrovascular segmentation, we have organized and discussed researches centered on deep learning. This survey comprehensively reviews deep learning for cerebrovascular segmentation since 2015, it mainly includes sliding window based models, U-Net based models, other CNNs based models, small-sample based models, semi-supervised or unsupervised models, fusion based models, Transformer based models, and graphics based models. We organize the structures, improvement, and important parameters of these models, as well as analyze development trends and quantitative assessment. Finally, we have discussed the challenges and opportunities of possible research directions, hoping that our survey can provide researchers with convenient reference.

Cerebrovascular segmentation from TOF-MRA based on multiple-U-net with focal loss function

BACKGROUND AND OBJECTIVE

Accurate cerebrovascular segmentation plays an important role in the diagnosis of cerebrovascular diseases. Considering the complexity and uncertainty of doctors' manual segmentation of cerebral vessels, this paper proposed an automatic segmentation algorithm based on Multiple-U-net (M-U-net) to segment cerebral vessel structures from the Time-of-flight Magnetic Resonance Angiography (TOF-MRA) data.

METHODS

First, the TOF-MRA data was normalized by volume and then divided into three groups through slices of axial, coronal and sagittal directions respectively. Three single U-nets were trained by divided dataset. To solve the problem of uneven distribution of positive and negative samples, the focal loss function was adopted in training. After obtaining the prediction results of three single U-nets, the voting feature fusion and the post-processing process based on connected domain analysis would be performed. 95 volumes of TOF-MRA provided by the MIDAS platform were applied to the experiment, among which 20 volumes were treated as the training dataset, 5 volumes were used as the validation dataset and the remaining 70 volumes were divided into 10 groups to test the trained model respectively.

RESULTS

Experiments showed that the proposed M-U-net based algorithm achieved 88.60% and 87.93% Dice Similarity Coefficient (DSC) on the verification dataset and testing dataset, which performed better than any single U-net.

CONCLUSIONS

Compared with other existing algorithms, our algorithm reached the state of the art level. The feature fusion of three single U-nets could effectively complement the segmentation results.

A novel computer-aided diagnosis system for the early detection of hypertension based on cerebrovascular alterations

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3-D CNN segmentation succeeded in delineating cerebrovasculature accurately.

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Segmentation approach is automatic and applicable on healthy/pathological vessels.

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Blood flow variability challenge was addressed by processing MRA scans locally.

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Proposed vascular features were efficient to quantify cerebral changes.

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Proposed CAD system could help clinicians predict hypertension before its onset.

Hypertension is a leading cause of mortality in the USA. While simple tools such as the sphygmomanometer are widely used to diagnose hypertension, they could not predict the disease before its onset. Clinical studies suggest that alterations in the structure of human brains’ cerebrovasculature start to develop years before the onset of hypertension. In this research, we present a novel computer-aided diagnosis (CAD) system for the early detection of hypertension. The proposed CAD system analyzes magnetic resonance angiography (MRA) data of human brains to detect and track the cerebral vascular alterations and this is achieved using the following steps: i) MRA data are preprocessed to eliminate noise effects, correct the bias field effect, reduce the contrast inhomogeneity using the generalized Gauss-Markov random field (GGMRF) model, and normalize the MRA data, ii) the cerebral vascular tree of each MRA volume is segmented using a 3-D convolutional neural network (3D-CNN), iii) cerebral features in terms of diameters and tortuosity of blood vessels are estimated and used to construct feature vectors, iv) feature vectors are then used to train and test various artificial neural networks to classify data into two classes; normal and hypertensive. A balanced data set of 66 subjects were used to test the CAD system. Experimental results reported a classification accuracy of 90.9% which supports the efficacy of the CAD system components to accurately model and discriminate between normal and hypertensive subjects. Clinicians would benefit from the proposed CAD system to detect and track cerebral vascular alterations over time for people with high potential of developing hypertension and to prepare appropriate treatment plans to mitigate adverse events.