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Digitally reconstructed radiographs (DRRs) are simulated 2D X-ray images generated from 3D CT volumes, widely used in preoperative settings but limited in intraoperative applications due to computational bottlenecks, especially for accurate but heavy physics-based Monte Carlo methods. While analytical DRR renderers offer greater efficiency, they overlook anisotropic X-ray image formation phenomena, such as Compton scattering. We present a novel approach that marries realistic physics-inspired X-ray simulation with efficient, differentiable DRR generation using 3D Gaussian splatting (3DGS). Our direction-disentangled 3DGS (DDGS) method separates the radiosity contribution into isotropic and direction-dependent components, approximating complex anisotropic interactions without intricate runtime simulations. Additionally, we adapt the 3DGS initialization to account for tomography data properties, enhancing accuracy and efficiency. Our method outperforms state-of-the-art techniques in image accuracy. Furthermore, our DDGS shows promise for intraoperative applications and inverse problems such as pose registration, delivering superior registration accuracy and runtime performance compared to analytical DRR methods.

Multi-view 3D human pose estimation is naturally superior to single view one, benefiting from more comprehensive information provided by images of multiple views. The information includes camera poses, 2D/3D human poses, and 3D geometry. However, the accurate annotation of these information is hard to obtain, making it challenging to predict accurate 3D human pose from multi-view images. To deal with this issue, we propose a fully self-supervised framework, named cascaded multi-view aggregating network (CMANet), to construct a canonical parameter space to holistically integrate and exploit multi-view information. In our framework, the multi-view information is grouped into two categories: 1) intra-view information , 2) inter-view information. Accordingly, CMANet consists of two components: intra-view module (IRV) and inter-view module (IEV). IRV is used for extracting initial camera pose and 3D human pose of each view; IEV is to fuse complementary pose information and cross-view 3D geometry for a final 3D human pose. To facilitate the aggregation of the intra- and inter-view, we define a canonical parameter space, depicted by per-view camera pose and human pose and shape parameters ($\theta$ and $\beta$) of SMPL model, and propose a two-stage learning procedure. At first stage, IRV learns to estimate camera pose and view-dependent 3D human pose supervised by confident output of an off-the-shelf 2D keypoint detector. At second stage, IRV is frozen and IEV further refines the camera pose and optimizes the 3D human pose by implicitly encoding the cross-view complement and 3D geometry constraint, achieved by jointly fitting predicted multi-view 2D keypoints. The proposed framework, modules, and learning strategy are demonstrated to be effective by comprehensive experiments and CMANet is superior to state-of-the-art methods in extensive quantitative and qualitative analysis.

Human mesh recovery from arbitrary multi-view images involves two characteristics: the arbitrary camera poses and arbitrary number of camera views. Because of the variability, designing a unified framework to tackle this task is challenging. The challenges can be summarized as the dilemma of being able to simultaneously estimate arbitrary camera poses and recover human mesh from arbitrary multi-view images while maintaining flexibility. To solve this dilemma, we propose a divide and conquer framework for Unified Human Mesh Recovery (U-HMR) from arbitrary multi-view images. In particular, U-HMR consists of a decoupled structure and two main components: camera and body decoupling (CBD), camera pose estimation (CPE), and arbitrary view fusion (AVF). As camera poses and human body mesh are independent of each other, CBD splits the estimation of them into two sub-tasks for two individual sub-networks (ie, CPE and AVF) to handle respectively, thus the two sub-tasks are disentangled. In CPE, since each camera pose is unrelated to the others, we adopt a shared MLP to process all views in a parallel way. In AVF, in order to fuse multi-view information and make the fusion operation independent of the number of views, we introduce a transformer decoder with a SMPL parameters query token to extract cross-view features for mesh recovery. To demonstrate the efficacy and flexibility of the proposed framework and effect of each component, we conduct extensive experiments on three public datasets: Human3.6M, MPI-INF-3DHP, and TotalCapture.

In artificial intelligence (AI), especially deep learning, data diversity and volume play a pivotal role in model development. However, training a robust deep learning model often faces challenges due to data privacy, regulations, and the difficulty of sharing data between different locations, especially for medical applications. To address this, we developed a method called the Federated Data Model (FDM). This method uses diffusion models to learn the characteristics of data at one site and then creates synthetic data that can be used at another site without sharing the actual data. We tested this approach with a medical image segmentation task, focusing on cardiac magnetic resonance images from different hospitals. Our results show that models trained with this method perform well both on the data they were originally trained on and on data from other sites. This approach offers a promising way to train accurate and privacy-respecting AI models across different locations.

Current deep learning reconstruction for accelerated cardiac cine MRI suffers from spatial and temporal blurring. We aim to improve image sharpness and motion delineation for cine MRI under high undersampling rates. A spatiotemporal diffusion enhancement model conditional on an existing deep learning reconstruction along with a novel paired sampling strategy was developed. The diffusion model provided sharper tissue boundaries and clearer motion than the original reconstruction in experts evaluation on clinical data. The innovative paired sampling strategy substantially reduced artificial noises in the generative results.

The currently limited quality of accelerated cardiac cine reconstruction may potentially be improved by the emerging diffusion models, but the clinically unacceptable long processing time poses a challenge. We aim to develop a clinically feasible diffusion-model-based reconstruction pipeline to improve the image quality of cine MRI. A multi-in multi-out diffusion enhancement model together with fast inference strategies were developed to be used in conjunction with a reconstruction model. The diffusion reconstruction reduced spatial and temporal blurring in prospectively undersampled clinical data, as validated by experts inspection. The 1.5s per video processing time enabled the approach to be applied in clinical scenarios.

For decades, three-dimensional C-arm Cone-Beam Computed Tomography (CBCT) imaging system has been a critical component for complex vascular and nonvascular interventional procedures. While it can significantly improve multiplanar soft tissue imaging and provide pre-treatment target lesion roadmapping and guidance, the traditional workflow can be cumbersome and time-consuming, especially for less experienced users. To streamline this process and enhance procedural efficiency overall, we proposed a visual perception system, namely AutoCBCT, seamlessly integrated with an angiography suite. This system dynamically models both the patient's body and the surgical environment in real-time. AutoCBCT enables a novel workflow with automated positioning, navigation and simulated test-runs, eliminating the need for manual operations and interactions. The proposed system has been successfully deployed and studied in both lab and clinical settings, demonstrating significantly improved workflow efficiency.

3D patient body modeling is critical to the success of automated patient positioning for smart medical scanning and operating rooms. Existing CNN-based end-to-end patient modeling solutions typically require a) customized network designs demanding large amount of relevant training data, covering extensive realistic clinical scenarios (e.g., patient covered by sheets), which leads to suboptimal generalizability in practical deployment, b) expensive 3D human model annotations, i.e., requiring huge amount of manual effort, resulting in systems that scale poorly. To address these issues, we propose a generic modularized 3D patient modeling method consists of (a) a multi-modal keypoint detection module with attentive fusion for 2D patient joint localization, to learn complementary cross-modality patient body information, leading to improved keypoint localization robustness and generalizability in a wide variety of imaging (e.g., CT, MRI etc.) and clinical scenarios (e.g., heavy occlusions); and (b) a self-supervised 3D mesh regression module which does not require expensive 3D mesh parameter annotations to train, bringing immediate cost benefits for clinical deployment. We demonstrate the efficacy of the proposed method by extensive patient positioning experiments on both public and clinical data. Our evaluation results achieve superior patient positioning performance across various imaging modalities in real clinical scenarios., Comment: MICCAI 2022

Addressing the intricate challenge of modeling and re-rendering dynamic scenes, most recent approaches have sought to simplify these complexities using plane-based explicit representations, overcoming the slow training time issues associated with methods like Neural Radiance Fields (NeRF) and implicit representations. However, the straightforward decomposition of 4D dynamic scenes into multiple 2D plane-based representations proves insufficient for re-rendering high-fidelity scenes with complex motions. In response, we present a novel direction-aware representation (DaRe) approach that captures scene dynamics from six different directions. This learned representation undergoes an inverse dual-tree complex wavelet transformation (DTCWT) to recover plane-based information. DaReNeRF computes features for each space-time point by fusing vectors from these recovered planes. Combining DaReNeRF with a tiny MLP for color regression and leveraging volume rendering in training yield state-of-the-art performance in novel view synthesis for complex dynamic scenes. Notably, to address redundancy introduced by the six real and six imaginary direction-aware wavelet coefficients, we introduce a trainable masking approach, mitigating storage issues without significant performance decline. Moreover, DaReNeRF maintains a 2x reduction in training time compared to prior art while delivering superior performance., Comment: Accepted at CVPR 2024. Paper + supplementary material

The detection of human parts (e.g., hands, face) and their correct association with individuals is an essential task, e.g., for ubiquitous human-machine interfaces and action recognition. Traditional methods often employ multi-stage processes, rely on cumbersome anchor-based systems, or do not scale well to larger part sets. This paper presents PBADet, a novel one-stage, anchor-free approach for part-body association detection. Building upon the anchor-free object representation across multi-scale feature maps, we introduce a singular part-to-body center offset that effectively encapsulates the relationship between parts and their parent bodies. Our design is inherently versatile and capable of managing multiple parts-to-body associations without compromising on detection accuracy or robustness. Comprehensive experiments on various datasets underscore the efficacy of our approach, which not only outperforms existing state-of-the-art techniques but also offers a more streamlined and efficient solution to the part-body association challenge., Comment: Accepted by ICLR2024

Deep implicit functions (DIFs) have emerged as a potent and articulate means of representing 3D shapes. However, methods modeling object categories or non-rigid entities have mainly focused on single-object scenarios. In this work, we propose MODIF, a multi-object deep implicit function that jointly learns the deformation fields and instance-specific latent codes for multiple objects at once. Our emphasis is on non-rigid, non-interpenetrating entities such as organs. To effectively capture the interrelation between these entities and ensure precise, collision-free representations, our approach facilitates signaling between category-specific fields to adequately rectify shapes. We also introduce novel inter-object supervision: an attraction-repulsion loss is formulated to refine contact regions between objects. Our approach is demonstrated on various medical benchmarks, involving modeling different groups of intricate anatomical entities. Experimental results illustrate that our model can proficiently learn the shape representation of each organ and their relations to others, to the point that shapes missing from unseen instances can be consistently recovered by our method. Finally, MODIF can also propagate semantic information throughout the population via accurate point correspondences, Comment: Accepted at AAAI 2024. Paper + supplementary material

Cardiac Magnetic Resonance imaging (CMR) is the gold standard for assessing cardiac function. Segmenting the left ventricle (LV), right ventricle (RV), and LV myocardium (MYO) in CMR images is crucial but time-consuming. Deep learning-based segmentation methods have emerged as effective tools for automating this process. However, CMR images present additional challenges due to irregular and varying heart shapes, particularly in basal and apical slices. In this study, we propose a classifier-guided two-stage network with an all-slice fusion transformer to enhance CMR segmentation accuracy, particularly in basal and apical slices. Our method was evaluated on extensive clinical datasets and demonstrated better performance in terms of Dice score compared to previous CNN-based and transformer-based models. Moreover, our method produces visually appealing segmentation shapes resembling human annotations and avoids common issues like holes or fragments in other models' segmentations., Comment: Accepted by 2023 MICCAI AMAI workshop

With the rise of cameras and smart sensors, humanity generates an exponential amount of data. This valuable information, including underrepresented cases like AI in medical settings, can fuel new deep-learning tools. However, data scientists must prioritize ensuring privacy for individuals in these untapped datasets, especially for images or videos with faces, which are prime targets for identification methods. Proposed solutions to de-identify such images often compromise non-identifying facial attributes relevant to downstream tasks. In this paper, we introduce Disguise, a novel algorithm that seamlessly de-identifies facial images while ensuring the usability of the modified data. Unlike previous approaches, our solution is firmly grounded in the domains of differential privacy and ensemble-learning research. Our method involves extracting and substituting depicted identities with synthetic ones, generated using variational mechanisms to maximize obfuscation and non-invertibility. Additionally, we leverage supervision from a mixture-of-experts to disentangle and preserve other utility attributes. We extensively evaluate our method using multiple datasets, demonstrating a higher de-identification rate and superior consistency compared to prior approaches in various downstream tasks., Comment: Accepted at AAAI 2024. Paper + supplementary material

Automatic medical volume segmentation often lacks clinical accuracy, necessitating further refinement. In this work, we interactively approach medical volume segmentation via two decoupled modules: interaction-to-segmentation and segmentation propagation. Given a medical volume, a user first segments a slice (or several slices) via the interaction module and then propagates the segmentation(s) to the remaining slices. The user may repeat this process multiple times until a sufficiently high volume segmentation quality is achieved. However, due to the lack of human correction during propagation, segmentation errors are prone to accumulate in the intermediate slices and may lead to sub-optimal performance. To alleviate this issue, we propose a simple yet effective cycle consistency loss that regularizes an intermediate segmentation by referencing the accurate segmentation in the starting slice. To this end, we introduce a backward segmentation path that propagates the intermediate segmentation back to the starting slice using the same propagation network. With cycle consistency training, the propagation network is better regularized than in standard forward-only training approaches. Evaluation results on challenging AbdomenCT-1K and OAI-ZIB datasets demonstrate the effectiveness of our method., Comment: Major revision of tech report. Code: https://github.com/uncbiag/iSegFormer/tree/v2.0

The k-space data generated from magnetic resonance imaging (MRI) is only a finite sampling of underlying signals. Therefore, MRI images often suffer from low spatial resolution and Gibbs ringing artifacts. Previous studies tackled these two problems separately, where super resolution methods tend to enhance Gibbs artifacts, whereas Gibbs ringing removal methods tend to blur the images. It is also a challenge that high resolution ground truth is hard to obtain in clinical MRI. In this paper, we propose an unsupervised learning framework for both MRI super resolution and Gibbs artifacts removal without using high resolution ground truth. Furthermore, we propose regularization methods to improve the model's generalizability across out-of-distribution MRI images. We evaluated our proposed methods with other state-of-the-art methods on eight MRI datasets with various contrasts and anatomical structures. Our method not only achieves the best SR performance but also significantly reduces the Gibbs artifacts. Our method also demonstrates good generalizability across different datasets, which is beneficial to clinical applications where training data are usually scarce and biased., Comment: Accepted by the 28th biennial international conference on Information Processing in Medical Imaging (IPMI 2023)

Compared with 2D MRI, 3D MRI provides superior volumetric spatial resolution and signal-to-noise ratio. However, it is more challenging to reconstruct 3D MRI images. Current methods are mainly based on convolutional neural networks (CNN) with small kernels, which are difficult to scale up to have sufficient fitting power for 3D MRI reconstruction due to the large image size and GPU memory constraint. Furthermore, MRI reconstruction is a deconvolution problem, which demands long-distance information that is difficult to capture by CNNs with small convolution kernels. The multi-layer perceptron (MLP) can model such long-distance information, but it requires a fixed input size. In this paper, we proposed Recon3DMLP, a hybrid of CNN modules with small kernels for low-frequency reconstruction and adaptive MLP (dMLP) modules with large kernels to boost the high-frequency reconstruction, for 3D MRI reconstruction. We further utilized the circular shift operation based on MRI physics such that dMLP accepts arbitrary image size and can extract global information from the entire FOV. We also propose a GPU memory efficient data fidelity module that can reduce $>$50$\%$ memory. We compared Recon3DMLP with other CNN-based models on a high-resolution (HR) 3D MRI dataset. Recon3DMLP improves HR 3D reconstruction and outperforms several existing CNN-based models under similar GPU memory consumption, which demonstrates that Recon3DMLP is a practical solution for HR 3D MRI reconstruction., Comment: MICCAI 2023 early accept

Dynamic Magnetic Resonance Imaging (dMRI) is widely used to assess various cardiac conditions such as cardiac motion and blood flow. To accelerate MR acquisition, techniques such as undersampling and Simultaneous Multi-Slice (SMS) are often used. Special reconstruction algorithms are needed to reconstruct multiple SMS image slices from the entangled information. Deep learning (DL)-based methods have shown promising results for single-slice MR reconstruction, but the addition of SMS acceleration raises unique challenges due to the composite k-space signals and the resulting images with strong inter-slice artifacts. Furthermore, many dMRI applications lack sufficient data for training reconstruction neural networks. In this study, we propose a novel DL-based framework for dynamic SMS reconstruction. Our main contributions are 1) a combination of data transformation steps and network design that effectively leverages the unique characteristics of undersampled dynamic SMS data, and 2) an MR physics-guided transfer learning strategy that addresses the data scarcity issue. Thorough comparisons with multiple baseline methods illustrate the strengths of our proposed methods.

To date, little attention has been given to multi-view 3D human mesh estimation, despite real-life applicability (e.g., motion capture, sport analysis) and robustness to single-view ambiguities. Existing solutions typically suffer from poor generalization performance to new settings, largely due to the limited diversity of image-mesh pairs in multi-view training data. To address this shortcoming, people have explored the use of synthetic images. But besides the usual impact of visual gap between rendered and target data, synthetic-data-driven multi-view estimators also suffer from overfitting to the camera viewpoint distribution sampled during training which usually differs from real-world distributions. Tackling both challenges, we propose a novel simulation-based training pipeline for multi-view human mesh recovery, which (a) relies on intermediate 2D representations which are more robust to synthetic-to-real domain gap; (b) leverages learnable calibration and triangulation to adapt to more diversified camera setups; and (c) progressively aggregates multi-view information in a canonical 3D space to remove ambiguities in 2D representations. Through extensive benchmarking, we demonstrate the superiority of the proposed solution especially for unseen in-the-wild scenarios., Comment: Accepted by AAAI2023

Multi-contrast Magnetic Resonance Imaging (MRI) generates multiple medical images with rich and complementary information for routine clinical use; however, it suffers from a long acquisition time. Recent works for accelerating MRI, mainly designed for single contrast, may not be optimal for multi-contrast scenario since the inherent correlations among the multi-contrast images are not exploited. In addition, independent reconstruction of each contrast usually does not translate to optimal performance of downstream tasks. Motivated by these aspects, in this paper we design an end-to-end framework for accelerating multi-contrast MRI which simultaneously optimizes the entire MR imaging workflow including sampling, reconstruction and downstream tasks to achieve the best overall outcomes. The proposed framework consists of a sampling mask generator for each image contrast and a reconstructor exploiting the inter-contrast correlations with a recurrent structure which enables the information sharing in a holistic way. The sampling mask generator and the reconstructor are trained jointly across the multiple image contrasts. The acceleration ratio of each image contrast is also learnable and can be driven by a downstream task performance. We validate our approach on a multi-contrast brain dataset and a multi-contrast knee dataset. Experiments show that (1) our framework consistently outperforms the baselines designed for single contrast on both datasets; (2) our newly designed recurrent reconstruction network effectively improves the reconstruction quality for multi-contrast images; (3) the learnable acceleration ratio improves the downstream task performance significantly. Overall, this work has potentials to open up new avenues for optimizing the entire multi-contrast MR imaging workflow.

Predicting the future trajectory of a person remains a challenging problem, due to randomness and subjectivity of human movement. However, the moving patterns of human in a constrained scenario typically conform to a limited number of regularities to a certain extent, because of the scenario restrictions and person-person or person-object interactivity. Thus, an individual person in this scenario should follow one of the regularities as well. In other words, a person's subsequent trajectory has likely been traveled by others. Based on this hypothesis, we propose to forecast a person's future trajectory by learning from the implicit scene regularities. We call the regularities, inherently derived from the past dynamics of the people and the environment in the scene, scene history. We categorize scene history information into two types: historical group trajectory and individual-surroundings interaction. To exploit these two types of information for trajectory prediction, we propose a novel framework Scene History Excavating Network (SHENet), where the scene history is leveraged in a simple yet effective approach. In particular, we design two components: the group trajectory bank module to extract representative group trajectories as the candidate for future path, and the cross-modal interaction module to model the interaction between individual past trajectory and its surroundings for trajectory refinement. In addition, to mitigate the uncertainty in ground-truth trajectory, caused by the aforementioned randomness and subjectivity of human movement, we propose to include smoothness into the training process and evaluation metrics. We conduct extensive evaluations to validate the efficacy of our proposed framework on ETH, UCY, as well as a new, challenging benchmark dataset PAV, demonstrating superior performance compared to state-of-the-art methods., Comment: Accept in the Neural Information Processing Systems (NeurIPS) 2022

Federated Learning (FL) is a machine learning paradigm where many local nodes collaboratively train a central model while keeping the training data decentralized. This is particularly relevant for clinical applications since patient data are usually not allowed to be transferred out of medical facilities, leading to the need for FL. Existing FL methods typically share model parameters or employ co-distillation to address the issue of unbalanced data distribution. However, they also require numerous rounds of synchronized communication and, more importantly, suffer from a privacy leakage risk. We propose a privacy-preserving FL framework leveraging unlabeled public data for one-way offline knowledge distillation in this work. The central model is learned from local knowledge via ensemble attention distillation. Our technique uses decentralized and heterogeneous local data like existing FL approaches, but more importantly, it significantly reduces the risk of privacy leakage. We demonstrate that our method achieves very competitive performance with more robust privacy preservation based on extensive experiments on image classification, segmentation, and reconstruction tasks.

Knowing the 3D motions in a dynamic scene is essential to many vision applications. Recent progress is mainly focused on estimating the activity of some specific elements like humans. In this paper, we leverage a neural motion field for estimating the motion of all points in a multiview setting. Modeling the motion from a dynamic scene with multiview data is challenging due to the ambiguities in points of similar color and points with time-varying color. We propose to regularize the estimated motion to be predictable. If the motion from previous frames is known, then the motion in the near future should be predictable. Therefore, we introduce a predictability regularization by first conditioning the estimated motion on latent embeddings, then by adopting a predictor network to enforce predictability on the embeddings. The proposed framework PREF (Predictability REgularized Fields) achieves on par or better results than state-of-the-art neural motion field-based dynamic scene representation methods, while requiring no prior knowledge of the scene., Comment: Accepted at ECCV 2022 (oral). Paper + supplementary material

Federated Learning (FL) is a machine learning paradigm where local nodes collaboratively train a central model while the training data remains decentralized. Existing FL methods typically share model parameters or employ co-distillation to address the issue of unbalanced data distribution. However, they suffer from communication bottlenecks. More importantly, they risk privacy leakage. In this work, we develop a privacy preserving and communication efficient method in a FL framework with one-shot offline knowledge distillation using unlabeled, cross-domain public data. We propose a quantized and noisy ensemble of local predictions from completely trained local models for stronger privacy guarantees without sacrificing accuracy. Based on extensive experiments on image classification and text classification tasks, we show that our privacy-preserving method outperforms baseline FL algorithms with superior performance in both accuracy and communication efficiency., Comment: Accepted by AAAI2022

Fully supervised human mesh recovery methods are data-hungry and have poor generalizability due to the limited availability and diversity of 3D-annotated benchmark datasets. Recent progress in self-supervised human mesh recovery has been made using synthetic-data-driven training paradigms where the model is trained from synthetic paired 2D representation (e.g., 2D keypoints and segmentation masks) and 3D mesh. However, on synthetic dense correspondence maps (i.e., IUV) few have been explored since the domain gap between synthetic training data and real testing data is hard to address for 2D dense representation. To alleviate this domain gap on IUV, we propose cross-representation alignment utilizing the complementary information from the robust but sparse representation (2D keypoints). Specifically, the alignment errors between initial mesh estimation and both 2D representations are forwarded into regressor and dynamically corrected in the following mesh regression. This adaptive cross-representation alignment explicitly learns from the deviations and captures complementary information: robustness from sparse representation and richness from dense representation. We conduct extensive experiments on multiple standard benchmark datasets and demonstrate competitive results, helping take a step towards reducing the annotation effort needed to produce state-of-the-art models in human mesh estimation., Comment: Accepted ECCV2022

Accurate segmentation and motion estimation of myocardium have always been important in clinic field, which essentially contribute to the downstream diagnosis. However, existing methods cannot always guarantee the shape integrity for myocardium segmentation. In addition, motion estimation requires point correspondence on the myocardium region across different frames. In this paper, we propose a novel end-to-end deep statistic shape model to focus on myocardium segmentation with both shape integrity and boundary correspondence preserving. Specifically, myocardium shapes are represented by a fixed number of points, whose variations are extracted by Principal Component Analysis (PCA). Deep neural network is used to predict the transformation parameters (both affine and deformation), which are then used to warp the mean point cloud to the image domain. Furthermore, a differentiable rendering layer is introduced to incorporate mask supervision into the framework to learn more accurate point clouds. In this way, the proposed method is able to consistently produce anatomically reasonable segmentation mask without post processing. Additionally, the predicted point cloud guarantees boundary correspondence for sequential images, which contributes to the downstream tasks, such as the motion estimation of myocardium. We conduct several experiments to demonstrate the effectiveness of the proposed method on several benchmark datasets., Comment: 12 pages, 8 figures

The goal of click-based interactive image segmentation is to obtain precise object segmentation masks with limited user interaction, i.e., by a minimal number of user clicks. Existing methods require users to provide all the clicks: by first inspecting the segmentation mask and then providing points on mislabeled regions, iteratively. We ask the question: can our model directly predict where to click, so as to further reduce the user interaction cost? To this end, we propose {\PseudoClick}, a generic framework that enables existing segmentation networks to propose candidate next clicks. These automatically generated clicks, termed pseudo clicks in this work, serve as an imitation of human clicks to refine the segmentation mask., Comment: 18 pages, 6 figures, 7 tables. ECCV 2022

High-quality MRI reconstruction plays a critical role in clinical applications. Deep learning-based methods have achieved promising results on MRI reconstruction. However, most state-of-the-art methods were designed to optimize the evaluation metrics commonly used for natural images, such as PSNR and SSIM, whereas the visual quality is not primarily pursued. Compared to the fully-sampled images, the reconstructed images are often blurry, where high-frequency features might not be sharp enough for confident clinical diagnosis. To this end, we propose an invertible sharpening network (InvSharpNet) to improve the visual quality of MRI reconstructions. During training, unlike the traditional methods that learn to map the input data to the ground truth, InvSharpNet adapts a backward training strategy that learns a blurring transform from the ground truth (fully-sampled image) to the input data (blurry reconstruction). During inference, the learned blurring transform can be inverted to a sharpening transform leveraging the network's invertibility. The experiments on various MRI datasets demonstrate that InvSharpNet can improve reconstruction sharpness with few artifacts. The results were also evaluated by radiologists, indicating better visual quality and diagnostic confidence of our proposed method., Comment: Accepted by MICCAI 2022

We consider the problem of abnormality localization for clinical applications. While deep learning has driven much recent progress in medical imaging, many clinical challenges are not fully addressed, limiting its broader usage. While recent methods report high diagnostic accuracies, physicians have concerns trusting these algorithm results for diagnostic decision-making purposes because of a general lack of algorithm decision reasoning and interpretability. One potential way to address this problem is to further train these models to localize abnormalities in addition to just classifying them. However, doing this accurately will require a large amount of disease localization annotations by clinical experts, a task that is prohibitively expensive to accomplish for most applications. In this work, we take a step towards addressing these issues by means of a new attention-driven weakly supervised algorithm comprising a hierarchical attention mining framework that unifies activation- and gradient-based visual attention in a holistic manner. Our key algorithmic innovations include the design of explicit ordinal attention constraints, enabling principled model training in a weakly-supervised fashion, while also facilitating the generation of visual-attention-driven model explanations by means of localization cues. On two large-scale chest X-ray datasets (NIH ChestX-ray14 and CheXpert), we demonstrate significant localization performance improvements over the current state of the art while also achieving competitive classification performance. Our code is available on https://github.com/oyxhust/HAM.

We consider the problem of estimating frame-level full human body meshes given a video of a person with natural motion dynamics. While much progress in this field has been in single image-based mesh estimation, there has been a recent uptick in efforts to infer mesh dynamics from video given its role in alleviating issues such as depth ambiguity and occlusions. However, a key limitation of existing work is the assumption that all the observed motion dynamics can be modeled using one dynamical/recurrent model. While this may work well in cases with relatively simplistic dynamics, inference with in-the-wild videos presents many challenges. In particular, it is typically the case that different body parts of a person undergo different dynamics in the video, e.g., legs may move in a way that may be dynamically different from hands (e.g., a person dancing). To address these issues, we present a new method for video mesh recovery that divides the human mesh into several local parts following the standard skeletal model. We then model the dynamics of each local part with separate recurrent models, with each model conditioned appropriately based on the known kinematic structure of the human body. This results in a structure-informed local recurrent learning architecture that can be trained in an end-to-end fashion with available annotations. We conduct a variety of experiments on standard video mesh recovery benchmark datasets such as Human3.6M, MPI-INF-3DHP, and 3DPW, demonstrating the efficacy of our design of modeling local dynamics as well as establishing state-of-the-art results based on standard evaluation metrics., Comment: 10 pages, 6 figures, 2 tables

Despite much recent progress in video-based person re-identification (re-ID), the current state-of-the-art still suffers from common real-world challenges such as appearance similarity among various people, occlusions, and frame misalignment. To alleviate these problems, we propose Spatio-Temporal Representation Factorization (STRF), a flexible new computational unit that can be used in conjunction with most existing 3D convolutional neural network architectures for re-ID. The key innovations of STRF over prior work include explicit pathways for learning discriminative temporal and spatial features, with each component further factorized to capture complementary person-specific appearance and motion information. Specifically, temporal factorization comprises two branches, one each for static features (e.g., the color of clothes) that do not change much over time, and dynamic features (e.g., walking patterns) that change over time. Further, spatial factorization also comprises two branches to learn both global (coarse segments) as well as local (finer segments) appearance features, with the local features particularly useful in cases of occlusion or spatial misalignment. These two factorization operations taken together result in a modular architecture for our parameter-wise light STRF unit that can be plugged in between any two 3D convolutional layers, resulting in an end-to-end learning framework. We empirically show that STRF improves performance of various existing baseline architectures while demonstrating new state-of-the-art results using standard person re-ID evaluation protocols on three benchmarks., Comment: Accepted at IEEE ICCV 2021, Includes Supplementary Material

We consider the problem of obese human mesh recovery, i.e., fitting a parametric human mesh to images of obese people. Despite obese person mesh fitting being an important problem with numerous applications (e.g., healthcare), much recent progress in mesh recovery has been restricted to images of non-obese people. In this work, we identify this crucial gap in the current literature by presenting and discussing limitations of existing algorithms. Next, we present a simple baseline to address this problem that is scalable and can be easily used in conjunction with existing algorithms to improve their performance. Finally, we present a generalized human mesh optimization algorithm that substantially improves the performance of existing methods on both obese person images as well as community-standard benchmark datasets. A key innovation of this technique is that it does not rely on supervision from expensive-to-create mesh parameters. Instead, starting from widely and cheaply available 2D keypoints annotations, our method automatically generates mesh parameters that can in turn be used to re-train and fine-tune any existing mesh estimation algorithm. This way, we show our method acts as a drop-in to improve the performance of a wide variety of contemporary mesh estimation methods. We conduct extensive experiments on multiple datasets comprising both standard and obese person images and demonstrate the efficacy of our proposed techniques., Comment: 10 pages, 5 figures, 4 tables

Image registration plays an important role in medical image analysis. Conventional optimization based methods provide an accurate estimation due to the iterative process at the cost of expensive computation. Deep learning methods such as learn-to-map are much faster but either iterative or coarse-to-fine approach is required to improve accuracy for handling large motions. In this work, we proposed to learn a registration optimizer via a multi-scale neural ODE model. The inference consists of iterative gradient updates similar to a conventional gradient descent optimizer but in a much faster way, because the neural ODE learns from the training data to adapt the gradient efficiently at each iteration. Furthermore, we proposed to learn a modal-independent similarity metric to address image appearance variations across different image contrasts. We performed evaluations through extensive experiments in the context of multi-contrast 3D MR images from both public and private data sources and demonstrate the superior performance of our proposed methods.

Retrospectively gated cine (retro-cine) MRI is the clinical standard for cardiac functional analysis. Deep learning (DL) based methods have been proposed for the reconstruction of highly undersampled MRI data and show superior image quality and magnitude faster reconstruction time than CS-based methods. Nevertheless, it remains unclear whether DL reconstruction is suitable for cardiac function analysis. To address this question, in this study we evaluate and compare the cardiac functional values (EDV, ESV and EF for LV and RV, respectively) obtained from highly accelerated MRI acquisition using DL based reconstruction algorithm (DL-cine) with values from CS-cine and conventional retro-cine. To the best of our knowledge, this is the first work to evaluate the cine MRI with deep learning reconstruction for cardiac function analysis and compare it with other conventional methods. The cardiac functional values obtained from cine MRI with deep learning reconstruction are consistent with values from clinical standard retro-cine MRI., Comment: Presented at ISMRM 2021 as the digital poster

Multi-contrast MRI images provide complementary contrast information about the characteristics of anatomical structures and are commonly used in clinical practice. Recently, a multi-flip-angle (FA) and multi-echo GRE method (MULTIPLEX MRI) has been developed to simultaneously acquire multiple parametric images with just one single scan. However, it poses two challenges for MULTIPLEX to be used in the 3D high-resolution setting: a relatively long scan time and the huge amount of 3D multi-contrast data for reconstruction. Currently, no DL based method has been proposed for 3D MULTIPLEX data reconstruction. We propose a deep learning framework for undersampled 3D MRI data reconstruction and apply it to MULTIPLEX MRI. The proposed deep learning method shows good performance in image quality and reconstruction time., Comment: Presented at ISMRM 2021 as the digital poster

Despite substantial progress in applying neural networks (NN) to a wide variety of areas, they still largely suffer from a lack of transparency and interpretability. While recent developments in explainable artificial intelligence attempt to bridge this gap (e.g., by visualizing the correlation between input pixels and final outputs), these approaches are limited to explaining low-level relationships, and crucially, do not provide insights on error correction. In this work, we propose a framework (VRX) to interpret classification NNs with intuitive structural visual concepts. Given a trained classification model, the proposed VRX extracts relevant class-specific visual concepts and organizes them using structural concept graphs (SCG) based on pairwise concept relationships. By means of knowledge distillation, we show VRX can take a step towards mimicking the reasoning process of NNs and provide logical, concept-level explanations for final model decisions. With extensive experiments, we empirically show VRX can meaningfully answer "why" and "why not" questions about the prediction, providing easy-to-understand insights about the reasoning process. We also show that these insights can potentially provide guidance on improving NN's performance., Comment: CVPR 2021

Accurate estimation of shape thickness from medical images is crucial in clinical applications. For example, the thickness of myocardium is one of the key to cardiac disease diagnosis. While mathematical models are available to obtain accurate dense thickness estimation, they suffer from heavy computational overhead due to iterative solvers. To this end, we propose novel methods for dense thickness estimation, including a fast solver that estimates thickness from binary annular shapes and an end-to-end network that estimates thickness directly from raw cardiac images.We test the proposed models on three cardiac datasets and one synthetic dataset, achieving impressive results and generalizability on all. Thickness estimation is performed without iterative solvers or manual correction, which is 100 times faster than the mathematical model. We also analyze thickness patterns on different cardiac pathologies with a standard clinical model and the results demonstrate the potential clinical value of our method for thickness based cardiac disease diagnosis., Comment: Accepted by STACOM 2020

Cardiac motion estimation is critical to the assessment of cardiac function. Myocardium feature tracking (FT) can directly estimate cardiac motion from cine MRI, which requires no special scanning procedure. However, current deep learning-based FT methods may result in unrealistic myocardium shapes since the learning is solely guided by image intensities without considering anatomy. On the other hand, motion estimation through learning is challenging because ground-truth motion fields are almost impossible to obtain. In this study, we propose a novel Anatomy-Aware Tracker (AATracker) for cardiac motion estimation that preserves anatomy by weak supervision. A convolutional variational autoencoder (VAE) is trained to encapsulate realistic myocardium shapes. A baseline dense motion tracker is trained to approximate the motion fields and then refined to estimate anatomy-aware motion fields under the weak supervision from the VAE. We evaluate the proposed method on long-axis cardiac cine MRI, which has more complex myocardium appearances and motions than short-axis. Compared with other methods, AATracker significantly improves the tracking performance and provides visually more realistic tracking results, demonstrating the effectiveness of the proposed weakly-supervision scheme in cardiac motion estimation.

We consider the problem of visually explaining similarity models, i.e., explaining why a model predicts two images to be similar in addition to producing a scalar score. While much recent work in visual model interpretability has focused on gradient-based attention, these methods rely on a classification module to generate visual explanations. Consequently, they cannot readily explain other kinds of models that do not use or need classification-like loss functions (e.g., similarity models trained with a metric learning loss). In this work, we bridge this crucial gap, presenting a method to generate gradient-based visual attention for image similarity predictors. By relying solely on the learned feature embedding, we show that our approach can be applied to any kind of CNN-based similarity architecture, an important step towards generic visual explainability. We show that our resulting attention maps serve more than just interpretability; they can be infused into the model learning process itself with new trainable constraints. We show that the resulting similarity models perform, and can be visually explained, better than the corresponding baseline models trained without these constraints. We demonstrate our approach using extensive experiments on three different kinds of tasks: generic image retrieval, person re-identification, and low-shot semantic segmentation., Comment: 13 pages, 10 figures, 4 tables. arXiv admin note: substantial text overlap with arXiv:1911.07381

Real-time cardiac cine MRI does not require ECG gating in the data acquisition and is more useful for patients who can not hold their breaths or have abnormal heart rhythms. However, to achieve fast image acquisition, real-time cine commonly acquires highly undersampled data, which imposes a significant challenge for MRI image reconstruction. We propose a residual convolutional RNN for real-time cardiac cine reconstruction. To the best of our knowledge, this is the first work applying deep learning approach to Cartesian real-time cardiac cine reconstruction. Based on the evaluation from radiologists, our deep learning model shows superior performance than compressed sensing., Comment: Presented at ISMRM 2020 as the digital poster

Cardiac motion estimation plays a key role in MRI cardiac feature tracking and function assessment such as myocardium strain. In this paper, we propose Motion Pyramid Networks, a novel deep learning-based approach for accurate and efficient cardiac motion estimation. We predict and fuse a pyramid of motion fields from multiple scales of feature representations to generate a more refined motion field. We then use a novel cyclic teacher-student training strategy to make the inference end-to-end and further improve the tracking performance. Our teacher model provides more accurate motion estimation as supervision through progressive motion compensations. Our student model learns from the teacher model to estimate motion in a single step while maintaining accuracy. The teacher-student knowledge distillation is performed in a cyclic way for a further performance boost. Our proposed method outperforms a strong baseline model on two public available clinical datasets significantly, evaluated by a variety of metrics and the inference time. New evaluation metrics are also proposed to represent errors in a clinically meaningful manner., Comment: Accepted by MICCAI2020

We propose to formulate MRI image reconstruction as an optimization problem and model the optimization trajectory as a dynamic process using ordinary differential equations (ODEs). We model the dynamics in ODE with a neural network and solve the desired ODE with the off-the-shelf (fixed) solver to obtain reconstructed images. We extend this model and incorporate the knowledge of off-the-shelf ODE solvers into the network design (learned solvers). We investigate several models based on three ODE solvers and compare models with fixed solvers and learned solvers. Our models achieve better reconstruction results and are more parameter efficient than other popular methods such as UNet and cascaded CNN. We introduce a new way of tackling the MRI reconstruction problem by modeling the continuous optimization dynamics using neural ODEs., Comment: Accepted by MICCAI 2020

Motion estimation of cardiac MRI videos is crucial for the evaluation of human heart anatomy and function. Recent researches show promising results with deep learning-based methods. In clinical deployment, however, they suffer dramatic performance drops due to mismatched distributions between training and testing datasets, commonly encountered in the clinical environment. On the other hand, it is arguably impossible to collect all representative datasets and to train a universal tracker before deployment. In this context, we proposed a novel fast online adaptive learning (FOAL) framework: an online gradient descent based optimizer that is optimized by a meta-learner. The meta-learner enables the online optimizer to perform a fast and robust adaptation. We evaluated our method through extensive experiments on two public clinical datasets. The results showed the superior performance of FOAL in accuracy compared to the offline-trained tracking method. On average, the FOAL took only $0.4$ second per video for online optimization., Comment: Accepted by CVPR 2020

We consider the problem of estimating a parametric model of 3D human mesh from a single image. While there has been substantial recent progress in this area with direct regression of model parameters, these methods only implicitly exploit the human body kinematic structure, leading to sub-optimal use of the model prior. In this work, we address this gap by proposing a new technique for regression of human parametric model that is explicitly informed by the known hierarchical structure, including joint interdependencies of the model. This results in a strong prior-informed design of the regressor architecture and an associated hierarchical optimization that is flexible to be used in conjunction with the current standard frameworks for 3D human mesh recovery. We demonstrate these aspects by means of extensive experiments on standard benchmark datasets, showing how our proposed new design outperforms several existing and popular methods, establishing new state-of-the-art results. By considering joint interdependencies, our method is equipped to infer joints even under data corruptions, which we demonstrate by conducting experiments under varying degrees of occlusion., Comment: 17 pages, 8 figures, 5 tables, ECCV 2020

Fast and accurate MRI image reconstruction from undersampled data is crucial in clinical practice. Deep learning based reconstruction methods have shown promising advances in recent years. However, recovering fine details from undersampled data is still challenging. In this paper, we introduce a novel deep learning based method, Pyramid Convolutional RNN (PC-RNN), to reconstruct images from multiple scales. Based on the formulation of MRI reconstruction as an inverse problem, we design the PC-RNN model with three convolutional RNN (ConvRNN) modules to iteratively learn the features in multiple scales. Each ConvRNN module reconstructs images at different scales and the reconstructed images are combined by a final CNN module in a pyramid fashion. The multi-scale ConvRNN modules learn a coarse-to-fine image reconstruction. Unlike other common reconstruction methods for parallel imaging, PC-RNN does not employ coil sensitive maps for multi-coil data and directly model the multiple coils as multi-channel inputs. The coil compression technique is applied to standardize data with various coil numbers, leading to more efficient training. We evaluate our model on the fastMRI knee and brain datasets and the results show that the proposed model outperforms other methods and can recover more details. The proposed method is one of the winner solutions in the 2019 fastMRI competition., Comment: Copyright\copyright 2022 IEEE. Personal use of this material is permitted. However, permission to use this material for any other purposes must be obtained from the IEEE by sending a request to pubs-permissions@ieee.org

We consider the problem of human pose estimation. While much recent work has focused on the RGB domain, these techniques are inherently under-constrained since there can be many 3D configurations that explain the same 2D projection. To this end, we propose a new method that uses RGB-D data to estimate a parametric human mesh model. Our key innovations include (a) the design of a new dynamic data fusion module that facilitates learning with a combination of RGB-only and RGB-D datasets, (b) a new constraint generator module that provides SMPL supervisory signals when explicit SMPL annotations are not available, and (c) the design of a new depth ranking learning objective, all of which enable principled model training with RGB-D data. We conduct extensive experiments on a variety of RGB-D datasets to demonstrate efficacy., Comment: 10 pages, 4 figures, 4 tables

While there has been substantial progress in learning suitable distance metrics, these techniques in general lack transparency and decision reasoning, i.e., explaining why the input set of images is similar or dissimilar. In this work, we solve this key problem by proposing the first method to generate generic visual similarity explanations with gradient-based attention. We demonstrate that our technique is agnostic to the specific similarity model type, e.g., we show applicability to Siamese, triplet, and quadruplet models. Furthermore, we make our proposed similarity attention a principled part of the learning process, resulting in a new paradigm for learning similarity functions. We demonstrate that our learning mechanism results in more generalizable, as well as explainable, similarity models. Finally, we demonstrate the generality of our framework by means of experiments on a variety of tasks, including image retrieval, person re-identification, and low-shot semantic segmentation., Comment: 10 pages, 7 figures, 4 tables

We propose a new procedure to guide training of a data-driven shape generative model using a structure-aware loss function. Complex 3D shapes often can be summarized using a coarsely defined structure which is consistent and robust across variety of observations. However, existing synthesis techniques do not account for structure during training, and thus often generate implausible and structurally unrealistic shapes. During training, we enforce structural constraints in order to enforce consistency and structure across the entire manifold. We propose a novel methodology for training 3D generative models that incorporates structural information into an end-to-end training pipeline., Comment: Accepted to 3DV 2018

We present a novel framework that learns to predict human anatomy from body surface. Specifically, our approach generates a synthetic X-ray image of a person only from the person's surface geometry. Furthermore, the synthetic X-ray image is parametrized and can be manipulated by adjusting a set of body markers which are also generated during the X-ray image prediction. With the proposed framework, multiple synthetic X-ray images can easily be generated by varying surface geometry. By perturbing the parameters, several additional synthetic X-ray images can be generated from the same surface geometry. As a result, our approach offers a potential to overcome the training data barrier in the medical domain. This capability is achieved by learning a pair of networks - one learns to generate the full image from the partial image and a set of parameters, and the other learns to estimate the parameters given the full image. During training, the two networks are trained iteratively such that they would converge to a solution where the predicted parameters and the full image are consistent with each other. In addition to medical data enrichment, our framework can also be used for image completion as well as anomaly detection., Comment: accepted for spotlight presentation at CVPR 2018

Recent progress in computer vision has been dominated by deep neural networks trained over large amounts of labeled data. Collecting such datasets is however a tedious, often impossible task; hence a surge in approaches relying solely on synthetic data for their training. For depth images however, discrepancies with real scans still noticeably affect the end performance. We thus propose an end-to-end framework which simulates the whole mechanism of these devices, generating realistic depth data from 3D models by comprehensively modeling vital factors e.g. sensor noise, material reflectance, surface geometry. Not only does our solution cover a wider range of sensors and achieve more realistic results than previous methods, assessed through extended evaluation, but we go further by measuring the impact on the training of neural networks for various recognition tasks; demonstrating how our pipeline seamlessly integrates such architectures and consistently enhances their performance., Comment: International Conference on 3D Vision 2017