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Local hemodynamic forces play an important role in determining the functional significance of coronary arterial stenosis and understanding the mechanism of coronary disease progression. Computational fluid dynamics (CFD) have been widely performed to simulate hemodynamics non-invasively from coronary computed tomography angiography (CCTA) images. However, accurate computational analysis is still limited by the complex construction of patient-specific modeling and time-consuming computation. In this work, we proposed an end-to-end deep learning framework, which could predict the coronary artery hemodynamics from CCTA images. The model was trained on the hemodynamic data obtained from 3D simulations of synthetic and real datasets. Extensive experiments demonstrated that the predicted hemdynamic distributions by our method agreed well with the CFD-derived results. Quantitatively, the proposed method has the capability of predicting the fractional flow reserve with an average error of 0.5\% and 2.5\% for the synthetic dataset and real dataset, respectively. Particularly, our method achieved much better accuracy for the real dataset compared to PointNet++ with the point cloud input. This study demonstrates the feasibility and great potential of our end-to-end deep learning method as a fast and accurate approach for hemodynamic analysis., Comment: 8pages

Segmentation of the coronary artery is an important task for the quantitative analysis of coronary computed tomography angiography (CCTA) images and is being stimulated by the field of deep learning. However, the complex structures with tiny and narrow branches of the coronary artery bring it a great challenge. Coupled with the medical image limitations of low resolution and poor contrast, fragmentations of segmented vessels frequently occur in the prediction. Therefore, a geometry-based cascaded segmentation method is proposed for the coronary artery, which has the following innovations: 1) Integrating geometric deformation networks, we design a cascaded network for segmenting the coronary artery and vectorizing results. The generated meshes of the coronary artery are continuous and accurate for twisted and sophisticated coronary artery structures, without fragmentations. 2) Different from mesh annotations generated by the traditional marching cube method from voxel-based labels, a finer vectorized mesh of the coronary artery is reconstructed with the regularized morphology. The novel mesh annotation benefits the geometry-based segmentation network, avoiding bifurcation adhesion and point cloud dispersion in intricate branches. 3) A dataset named CCA-200 is collected, consisting of 200 CCTA images with coronary artery disease. The ground truths of 200 cases are coronary internal diameter annotations by professional radiologists. Extensive experiments verify our method on our collected dataset CCA-200 and public ASOCA dataset, with a Dice of 0.778 on CCA-200 and 0.895 on ASOCA, showing superior results. Especially, our geometry-based model generates an accurate, intact and smooth coronary artery, devoid of any fragmentations of segmented vessels.

Advances in deep learning have revolutionized cyber-physical applications, including the development of Autonomous Vehicles. However, real-world collisions involving autonomous control of vehicles have raised significant safety concerns regarding the use of Deep Neural Networks (DNN) in safety-critical tasks, particularly Perception. The inherent unverifiability of DNNs poses a key challenge in ensuring their safe and reliable operation. In this work, we propose Perception Simplex (PS), a fault-tolerant application architecture designed for obstacle detection and collision avoidance. We analyze an existing LiDAR-based classical obstacle detection algorithm to establish strict bounds on its capabilities and limitations. Such analysis and verification have not been possible for deep learning-based perception systems yet. By employing verifiable obstacle detection algorithms, PS identifies obstacle existence detection faults in the output of unverifiable DNN-based object detectors. When faults with potential collision risks are detected, appropriate corrective actions are initiated. Through extensive analysis and software-in-the-loop simulations, we demonstrate that PS provides predictable and deterministic fault tolerance against obstacle existence detection faults, establishing a robust safety guarantee., Comment: arXiv admin note: substantial text overlap with arXiv:2208.14403

Perception of obstacles remains a critical safety concern for autonomous vehicles. Real-world collisions have shown that the autonomy faults leading to fatal collisions originate from obstacle existence detection. Open source autonomous driving implementations show a perception pipeline with complex interdependent Deep Neural Networks. These networks are not fully verifiable, making them unsuitable for safety-critical tasks. In this work, we present a safety verification of an existing LiDAR based classical obstacle detection algorithm. We establish strict bounds on the capabilities of this obstacle detection algorithm. Given safety standards, such bounds allow for determining LiDAR sensor properties that would reliably satisfy the standards. Such analysis has as yet been unattainable for neural network based perception systems. We provide a rigorous analysis of the obstacle detection system with empirical results based on real-world sensor data., Comment: Accepted at ISSRE 2022

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

Object detection in state-of-the-art Autonomous Vehicles (AV) framework relies heavily on deep neural networks. Typically, these networks perform object detection uniformly on the entire camera LiDAR frames. However, this uniformity jeopardizes the safety of the AV by giving the same priority to all objects in the scenes regardless of their risk of collision to the AV. In this paper, we present a new end-to-end pipeline for AV that introduces the concept of LiDAR cluster first and camera inference later to detect and classify objects. The benefits of our proposed framework are twofold. First, our pipeline prioritizes detecting objects that pose a higher risk of collision to the AV, giving more time for the AV to react to unsafe conditions. Second, it also provides, on average, faster inference speeds compared to popular deep neural network pipelines. We design our framework using the real-world datasets, the Waymo Open Dataset, solving challenges arising from the limitations of LiDAR sensors and object detection algorithms. We show that our novel object detection pipeline prioritizes the detection of higher risk objects while simultaneously achieving comparable accuracy and a 25% higher average speed compared to camera inference only., Comment: 6 pages

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).

Accurate liver and lesion segmentation from computed tomography (CT) images are highly demanded in clinical practice for assisting the diagnosis and assessment of hepatic tumor disease. However, automatic liver and lesion segmentation from contrast-enhanced CT volumes is extremely challenging due to the diversity in contrast, resolution, and quality of images. Previous methods based on UNet for 2D slice-by-slice or 3D volume-by-volume segmentation either lack sufficient spatial contexts or suffer from high GPU computational cost, which limits the performance. To tackle these issues, we propose a novel context-aware PolyUNet for accurate liver and lesion segmentation. It jointly explores structural diversity and consecutive t-adjacent slices to enrich feature expressive power and spatial contextual information while avoiding the overload of GPU memory consumption. In addition, we utilize zoom out/in and two-stage refinement strategy to exclude the irrelevant contexts and focus on the specific region for the fine-grained segmentation. Our method achieved very competitive performance at the MICCAI 2017 Liver Tumor Segmentation (LiTS) Challenge among all tasks with a single model and ranked the $3^{rd}$, $12^{th}$, $2^{nd}$, and $5^{th}$ places in the liver segmentation, lesion segmentation, lesion detection, and tumor burden estimation, respectively., Comment: 7 pages and 3 figures

In this work, we report the set-up and results of the Liver Tumor Segmentation Benchmark (LiTS), which was organized in conjunction with the IEEE International Symposium on Biomedical Imaging (ISBI) 2017 and the International Conferences on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2017 and 2018. The image dataset is diverse and contains primary and secondary tumors with varied sizes and appearances with various lesion-to-background levels (hyper-/hypo-dense), created in collaboration with seven hospitals and research institutions. Seventy-five submitted liver and liver tumor segmentation algorithms were trained on a set of 131 computed tomography (CT) volumes and were tested on 70 unseen test images acquired from different patients. We found that not a single algorithm performed best for both liver and liver tumors in the three events. The best liver segmentation algorithm achieved a Dice score of 0.963, whereas, for tumor segmentation, the best algorithms achieved Dices scores of 0.674 (ISBI 2017), 0.702 (MICCAI 2017), and 0.739 (MICCAI 2018). Retrospectively, we performed additional analysis on liver tumor detection and revealed that not all top-performing segmentation algorithms worked well for tumor detection. The best liver tumor detection method achieved a lesion-wise recall of 0.458 (ISBI 2017), 0.515 (MICCAI 2017), and 0.554 (MICCAI 2018), indicating the need for further research. LiTS remains an active benchmark and resource for research, e.g., contributing the liver-related segmentation tasks in \url{http://medicaldecathlon.com/}. In addition, both data and online evaluation are accessible via \url{www.lits-challenge.com}., Comment: Patrick Bilic, Patrick Christ, Hongwei Bran Li, and Eugene Vorontsov made equal contributions to this work. Published in Medical Image Analysis