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Weitian Chen

Publications and source records attributed to Weitian Chen.

25 records · Page 2Linked to original sources

Uncertainty-Aware Self-supervised Neural Network for Liver $T_{1ρ}$ Mapping with Relaxation Constraint

$T_{1ρ}$ mapping is a promising quantitative MRI technique for the non-invasive assessment of tissue properties. Learning-based approaches can map $T_{1ρ}$ from a reduced number of $T_{1ρ}$ weighted images, but requires significant amounts of high quality training data. Moreover, existing methods do not provide the confidence level of the $T_{1ρ}$ estimation. To address these problems, we proposed a self-supervised learning neural network that learns a $T_{1ρ}$ mapping using the relaxation constraint in the learning process. Epistemic uncertainty and aleatoric uncertainty are modelled for the $T_{1ρ}$ quantification network to provide a Bayesian confidence estimation of the $T_{1ρ}$ mapping. The uncertainty estimation can also regularize the model to prevent it from learning imperfect data. We conducted experiments on $T_{1ρ}$ data collected from 52 patients with non-alcoholic fatty liver disease. The results showed that our method outperformed the existing methods for $T_{1ρ}$ quantification of the liver using as few as two $T_{1ρ}$-weighted images. Our uncertainty estimation provided a feasible way of modelling the confidence of the self-supervised learning based $T_{1ρ}$ estimation, which is consistent with the reality in liver $T_{1ρ}$ imaging.

q-bio.TO↗

Source-free unsupervised domain adaptation for cross-modality abdominal multi-organ segmentation

Domain adaptation is crucial for transferring the knowledge from the source labeled CT dataset to the target unlabeled MR dataset in abdominal multi-organ segmentation. Meanwhile, it is highly desirable to avoid the high annotation cost related to the target dataset and protect the source dataset privacy. Therefore, we propose an effective source-free unsupervised domain adaptation method for cross-modality abdominal multi-organ segmentation without source dataset access. The proposed framework comprises two stages. In the first stage, the feature map statistics-guided model adaptation combined with entropy minimization is developed to help the top segmentation network reliably segment the target images. The pseudo-labels output from the top segmentation network are used to guide the style compensation network to generate source-like images. The pseudo-labels output from the middle segmentation network is used to supervise the learning progress of the desired model (bottom segmentation network). In the second stage, the circular learning and pixel-adaptive mask refinement are used to further improve the desired model performance. With this approach, we achieved satisfactory abdominal multi-organ segmentation performance, outperforming the existing state-of-the-art domain adaptation methods. The proposed approach can be easily extended to situations in which target annotation data exist. With only one labeled MR volume, the performance can be levelled with that of supervised learning. Furthermore, the proposed approach is proven to be effective for source-free unsupervised domain adaptation in reverse direction.

cs.CV↗

Denoising of Three-Dimensional Fast Spin Echo Magnetic Resonance Images of Knee Joints using Spatial-Variant Noise-Relevant Residual Learning of Convolution Neural Network

Two-dimensional (2D) fast spin echo (FSE) techniques play a central role in the clinical magnetic resonance imaging (MRI) of knee joints. Moreover, three-dimensional (3D) FSE provides high-isotropic-resolution magnetic resonance (MR) images of knee joints, but it has a reduced signal-to-noise ratio compared to 2D FSE. Deep-learning denoising methods are a promising approach for denoising MR images, but they are often trained using synthetic noise due to challenges in obtaining true noise distributions for MR images. In this study, inherent true noise information from 2-NEX acquisition was used to develop a deep-learning model based on residual learning of convolutional neural network (CNN), and this model was used to suppress the noise in 3D FSE MR images of knee joints. The proposed CNN used two-step residual learning over parallel transporting and residual blocks and was designed to comprehensively learn real noise features from 2-NEX training data. The results of an ablation study validated the network design. The new method achieved improved denoising performance of 3D FSE knee MR images compared with current state-of-the-art methods, based on the peak signal-to-noise ratio and structural similarity index measure. The improved image quality after denoising using the new method was verified by radiological evaluation. A deep CNN using the inherent spatial-varying noise information in 2-NEX acquisitions was developed. This method showed promise for clinical MRI assessments of the knee, and has potential applications for the assessment of other anatomical structures.

eess.IV↗

Unsupervised domain adaptation for cross-modality liver segmentation via joint adversarial learning and self-learning

Liver segmentation on images acquired using computed tomography (CT) and magnetic resonance imaging (MRI) plays an important role in clinical management of liver diseases. Compared to MRI, CT images of liver are more abundant and readily available. However, MRI can provide richer quantitative information of the liver compared to CT. Thus, it is desirable to achieve unsupervised domain adaptation for transferring the learned knowledge from the source domain containing labeled CT images to the target domain containing unlabeled MR images. In this work, we report a novel unsupervised domain adaptation framework for cross-modality liver segmentation via joint adversarial learning and self-learning. We propose joint semantic-aware and shape-entropy-aware adversarial learning with post-situ identification manner to implicitly align the distribution of task-related features extracted from the target domain with those from the source domain. In proposed framework, a network is trained with the above two adversarial losses in an unsupervised manner, and then a mean completer of pseudo-label generation is employed to produce pseudo-labels to train the next network (desired model). Additionally, semantic-aware adversarial learning and two self-learning methods, including pixel-adaptive mask refinement and student-to-partner learning, are proposed to train the desired model. To improve the robustness of the desired model, a low-signal augmentation function is proposed to transform MRI images as the input of the desired model to handle hard samples. Using the public data sets, our experiments demonstrated the proposed unsupervised domain adaptation framework reached four supervised learning methods with a Dice score 0.912 plus or minus 0.037 (mean plus or minus standard deviation).

cs.CV↗

Multipath CNN with alpha matte inference for knee tissue segmentation from MRI

Precise segmentation of knee tissues from magnetic resonance imaging (MRI) is critical in quantitative imaging and diagnosis. Convolutional neural networks (CNNs), which are state of the art, have limitations owing to the lack of image-specific adaptation, such as low tissue contrasts and structural inhomogeneities, thereby leading to incomplete segmentation results. This paper presents a deep learning based automatic segmentation framework for knee tissue segmentation. A novel multipath CNN-based method is proposed, which consists of an encoder decoder-based segmentation network in combination with a low rank tensor-reconstructed segmentation network. Low rank reconstruction in MRI tensor sub-blocks is introduced to exploit the structural and morphological variations in knee tissues. To further improve the segmentation from CNNs, trimap generation, which effectively utilizes superimposed regions, is proposed for defining high, medium and low confidence regions from the multipath CNNs. The secondary path with low rank reconstructed input mitigates the conditions in which the primary segmentation network can potentially fail and overlook the boundary regions. The outcome of the segmentation is solved as an alpha matting problem by blending the trimap with the source input. Experiments on Osteoarthritis Initiative (OAI) datasets and a self prepared scan validate the effectiveness of the proposed method. We specifically demonstrate the application of the proposed method in a cartilage segmentation based thickness map for diagnosis purposes.

eess.IV↗

Improved liver T1rho measurement precision with a breathhold black blood single shot fast spin echo acquisition: a validation study in healthy volunteers

Purpose: To explore the usability and normal T1rho value of liver parenchyma with a novel single breathhold black blood single shot fast spin echo acquisition based liver imaging sequence. Materials and Methods: In total 19 health subjects (10 males, 9 females; mean age: 37.4 yrs; range: 23-54 yrs) participated in the study. 11 subjects had liver scanned twice in the same session to access scan-rescan repeatability. 12 subjects had liver scanned twice in two sessions with 7-10 days' interval to access scan-rescan reproducibility. MR was performed with a 3.0 T scanner with dual transmitter. The MR sequence allows simultaneous acquisition of 4 spin lock times (TSLs: 0ms, 10 ms, 30 ms, 50ms) in 10 second. Inherent black blood effect of fast spin echo and double inversion recovery were utilized to achieve blood signal suppression. Results: The technique demonstrated good image quality and minimal artifacts. For liver parenchyma, Bland-Altman plot showed the scan-rescan repeatability mean difference was 0.025 ms (95% limits of agreement: -1.163 to 1.213 ms), and intraclass correlation coefficient (ICC) was 0.977. The scan-rescan reproducibility mean difference was -0.075 ms (95% limits of agreement: -3.280 to 3.310 ms), and ICC was 0.820 which is better than the ICC of 0.764 of a previous bright blood multi-breath hold gradient echo acquisition technique. The liver T1rho value was 39.9 +/- 2.4 ms (range: 36.1 - 44.2 ms), which is lower than the value of 42.8=/-2.1 ms acquired with the previous bright blood technique. Conclusion: This study validated the application of a single breathhold black blood single shot fast spin echo acquisition based for human liver T1rho imaging. The lower liver parenchyma T1rho value and higher scan rescan reproducibility may improve of the sensitivity of this technique.

q-bio.TO↗

Bi-phase age-related brain gray matter magnetic resonance T1rho relaxation time change

Objectives: To investigate normative value and age-related change of brain magnetic resonance T1rho relaxation at 1.5 T. Methods: 20 males (age: 40.7+/-15.5 years, range: 22-68 years) and 22 females (age: 38.5 +/-14.8 years, range: 21-62 years), were scanned at 1.5 Tesla using 3D fluid suppressed turbo spin echo sequence. Regions-of-interests (ROIs) were obtained by atlas-based tissue segmentation and T1rho was calculated by fitting the mean value to monoexponential model. Correlation between T1rho relaxation of brain gray matter regions and age was investigated. Results: A regional difference among individual gray matter areas was noted; with hippocampus (98.37+/-5.37 msec) and amygdala (94.95+/-4.34 msec) have the highest measurement, while pallidum (83.81+/-5.49) and putamen (83.93+4.76) the lowest measurement. T1rho values decreased slowly (mean slope: -0.256) and significantly (p<0.05) with age in gray matter for subjects younger than 40 years old, while for subjects older than 40 years old there was no significant correlation between T1rho relaxation and age. Conclusion: T1rho relaxation demonstrates a bi-phase change with age in adults of 22-68 years.

q-bio.NC↗