IBoxCLA: Towards Robust Box-supervised Segmentation of Polyp via Improved Box-dice and Contrastive Latent-anchors

Box-supervised polyp segmentation attracts increasing attention for its cost-effective potential. Existing solutions often rely on learning-free methods or pretrained models to laboriously generate pseudo masks, triggering Dice constraint subsequently. In this paper, we found that a model guided by the simplest box-filled masks can accurately predict polyp locations/sizes, but suffers from shape collapsing. In response, we propose two innovative learning fashions, Improved Box-dice (IBox) and Contrastive Latent-Anchors (CLA), and combine them to train a robust box-supervised model IBoxCLA. The core idea behind IBoxCLA is to decouple the learning of location/size and shape, allowing for focused constraints on each of them. Specifically, IBox transforms the segmentation map into a proxy map using shape decoupling and confusion-region swapping sequentially. Within the proxy map, shapes are disentangled, while locations/sizes are encoded as box-like responses. By constraining the proxy map instead of the raw prediction, the box-filled mask can well supervise IBoxCLA without misleading its shape learning. Furthermore, CLA contributes to shape learning by generating two types of latent anchors, which are learned and updated using momentum and segmented polyps to steadily represent polyp and background features. The latent anchors facilitate IBoxCLA to capture discriminative features within and outside boxes in a contrastive manner, yielding clearer boundaries. We benchmark IBoxCLA on five public polyp datasets. The experimental results demonstrate the competitive performance of IBoxCLA compared to recent fully-supervised polyp segmentation methods, and its superiority over other box-supervised state-of-the-arts with a relative increase of overall mDice and mIoU by at least 6.5% and 7.5%, respectively.

Bi-Modality Medical Image Synthesis Using Semi-Supervised Sequential Generative Adversarial Networks

In this paper, we propose a bi-modality medical image synthesis approach based on sequential generative adversarial network (GAN) and semi-supervised learning. Our approach consists of two generative modules that synthesize images of the two modalities in a sequential order. A method for measuring the synthesis complexity is proposed to automatically determine the synthesis order in our sequential GAN. Images of the modality with a lower complexity are synthesized first, and the counterparts with a higher complexity are generated later. Our sequential GAN is trained end-to-end in a semi-supervised manner. In supervised training, the joint distribution of bi-modality images are learned from real paired images of the two modalities by explicitly minimizing the reconstruction losses between the real and synthetic images. To avoid overfitting limited training images, in unsupervised training, the marginal distribution of each modality is learned based on unpaired images by minimizing the Wasserstein distance between the distributions of real and fake images. We comprehensively evaluate the proposed model using two synthesis tasks based on three types of evaluate metrics and user studies. Visual and quantitative results demonstrate the superiority of our method to the state-of-the-art methods, and reasonable visual quality and clinical significance. Code is made publicly available at https://github.com/hustlinyi/Multimodal-Medical-Image-Synthesis.

Dual-view Correlation Hybrid Attention Network for Robust Holistic Mammogram Classification

Mammogram image is important for breast cancer screening, and typically obtained in a dual-view form, i.e., cranio-caudal (CC) and mediolateral oblique (MLO), to provide complementary information. However, previous methods mostly learn features from the two views independently, which violates the clinical knowledge and ignores the importance of dual-view correlation. In this paper, we propose a dual-view correlation hybrid attention network (DCHA-Net) for robust holistic mammogram classification. Specifically, DCHA-Net is carefully designed to extract and reinvent deep features for the two views, and meanwhile to maximize the underlying correlations between them. A hybrid attention module, consisting of local relation and non-local attention blocks, is proposed to alleviate the spatial misalignment of the paired views in the correlation maximization. A dual-view correlation loss is introduced to maximize the feature similarity between corresponding strip-like regions with equal distance to the chest wall, motivated by the fact that their features represent the same breast tissues, and thus should be highly-correlated. Experimental results on two public datasets, i.e., INbreast and CBIS-DDSM, demonstrate that DCHA-Net can well preserve and maximize feature correlations across views, and thus outperforms the state-of-the-arts for classifying a whole mammogram as malignant or not.

MFAI: A Scalable Bayesian Matrix Factorization Approach to Leveraging Auxiliary Information

In various practical situations, matrix factorization methods suffer from poor data quality, such as high data sparsity and low signal-to-noise ratio (SNR). Here we consider a matrix factorization problem by utilizing auxiliary information, which is massively available in real applications, to overcome the challenges caused by poor data quality. Unlike existing methods that mainly rely on simple linear models to combine auxiliary information with the main data matrix, we propose to integrate gradient boosted trees in the probabilistic matrix factorization framework to effectively leverage auxiliary information (MFAI). Thus, MFAI naturally inherits several salient features of gradient boosted trees, such as the capability of flexibly modeling nonlinear relationships, and robustness to irrelevant features and missing values in auxiliary information. The parameters in MAFI can be automatically determined under the empirical Bayes framework, making it adaptive to the utilization of auxiliary information and immune to overfitting. Moreover, MFAI is computationally efficient and scalable to large-scale datasets by exploiting variational inference. We demonstrate the advantages of MFAI through comprehensive numerical results from simulation studies and real data analysis. Our approach is implemented in the R package mfair available at https://github.com/YangLabHKUST/mfair.

Robust One-shot Segmentation of Brain Tissues via Image-aligned Style Transformation

One-shot segmentation of brain tissues is typically a dual-model iterative learning: a registration model (reg-model) warps a carefully-labeled atlas onto unlabeled images to initialize their pseudo masks for training a segmentation model (seg-model); the seg-model revises the pseudo masks to enhance the reg-model for a better warping in the next iteration. However, there is a key weakness in such dual-model iteration that the spatial misalignment inevitably caused by the reg-model could misguide the seg-model, which makes it converge on an inferior segmentation performance eventually. In this paper, we propose a novel image-aligned style transformation to reinforce the dual-model iterative learning for robust one-shot segmentation of brain tissues. Specifically, we first utilize the reg-model to warp the atlas onto an unlabeled image, and then employ the Fourier-based amplitude exchange with perturbation to transplant the style of the unlabeled image into the aligned atlas. This allows the subsequent seg-model to learn on the aligned and style-transferred copies of the atlas instead of unlabeled images, which naturally guarantees the correct spatial correspondence of an image-mask training pair, without sacrificing the diversity of intensity patterns carried by the unlabeled images. Furthermore, we introduce a feature-aware content consistency in addition to the image-level similarity to constrain the reg-model for a promising initialization, which avoids the collapse of image-aligned style transformation in the first iteration. Experimental results on two public datasets demonstrate 1) a competitive segmentation performance of our method compared to the fully-supervised method, and 2) a superior performance over other state-of-the-art with an increase of average Dice by up to 4.67%. The source code is available at: https://github.com/JinxLv/One-shot-segmentation-via-IST.

Bidirectional Semi-supervised Dual-branch CNN for Robust 3D Reconstruction of Stereo Endoscopic Images via Adaptive Cross and Parallel Supervisions

Semi-supervised learning via teacher-student network can train a model effectively on a few labeled samples. It enables a student model to distill knowledge from the teacher's predictions of extra unlabeled data. However, such knowledge flow is typically unidirectional, having the performance vulnerable to the quality of teacher model. In this paper, we seek to robust 3D reconstruction of stereo endoscopic images by proposing a novel fashion of bidirectional learning between two learners, each of which can play both roles of teacher and student concurrently. Specifically, we introduce two self-supervisions, i.e., Adaptive Cross Supervision (ACS) and Adaptive Parallel Supervision (APS), to learn a dual-branch convolutional neural network. The two branches predict two different disparity probability distributions for the same position, and output their expectations as disparity values. The learned knowledge flows across branches along two directions: a cross direction (disparity guides distribution in ACS) and a parallel direction (disparity guides disparity in APS). Moreover, each branch also learns confidences to dynamically refine its provided supervisions. In ACS, the predicted disparity is softened into a unimodal distribution, and the lower the confidence, the smoother the distribution. In APS, the incorrect predictions are suppressed by lowering the weights of those with low confidence. With the adaptive bidirectional learning, the two branches enjoy well-tuned supervisions from each other, and eventually converge on a consistent and more accurate disparity estimation. The extensive and comprehensive experimental results on three public datasets demonstrate our superior performance over the fully-supervised and semi-supervised state-of-the-arts with a decrease of averaged disparity error by 13.95% and 3.90% at least, respectively.

Accurate Scoliosis Vertebral Landmark Localization on X-ray Images via Shape-constrained Multi-stage Cascaded CNNs

Vertebral landmark localization is a crucial step for variant spine-related clinical applications, which requires detecting the corner points of 17 vertebrae. However, the neighbor landmarks often disturb each other for the homogeneous appearance of vertebrae, which makes vertebral landmark localization extremely difficult. In this paper, we propose multi-stage cascaded convolutional neural networks (CNNs) to split the single task into two sequential steps, i.e., center point localization to roughly locate 17 center points of vertebrae, and corner point localization to find 4 corner points for each vertebra without distracted by others. Landmarks in each step are located gradually from a set of initialized points by regressing offsets via cascaded CNNs. Principal Component Analysis (PCA) is employed to preserve a shape constraint in offset regression to resist the mutual attraction of vertebrae. We evaluate our method on the AASCE dataset that consists of 609 tight spinal anterior-posterior X-ray images and each image contains 17 vertebrae composed of the thoracic and lumbar spine for spinal shape characterization. Experimental results demonstrate our superior performance of vertebral landmark localization over other state-of-the-arts with the relative error decreasing from 3.2e-3 to 7.2e-4.

A deep learning-based model reduction (DeePMR) method for simplifying chemical kinetics

A deep learning-based model reduction (DeePMR) method for simplifying chemical kinetics is proposed and validated using high-temperature auto-ignitions, perfectly stirred reactors (PSR), and one-dimensional freely propagating flames of n-heptane/air mixtures. The mechanism reduction is modeled as an optimization problem on Boolean space, where a Boolean vector, each entry corresponding to a species, represents a reduced mechanism. The optimization goal is to minimize the reduced mechanism size given the error tolerance of a group of pre-selected benchmark quantities. The key idea of the DeePMR is to employ a deep neural network (DNN) to formulate the objective function in the optimization problem. In order to explore high dimensional Boolean space efficiently, an iterative DNN-assisted data sampling and DNN training procedure are implemented. The results show that DNN-assistance improves sampling efficiency significantly, selecting only $10^5$ samples out of $10^{34}$ possible samples for DNN to achieve sufficient accuracy. The results demonstrate the capability of the DNN to recognize key species and reasonably predict reduced mechanism performance. The well-trained DNN guarantees the optimal reduced mechanism by solving an inverse optimization problem. By comparing ignition delay times, laminar flame speeds, temperatures in PSRs, the resulting skeletal mechanism has fewer species (45 species) but the same level of accuracy as the skeletal mechanism (56 species) obtained by the Path Flux Analysis (PFA) method. In addition, the skeletal mechanism can be further reduced to 28 species if only considering atmospheric, near-stoichiometric conditions (equivalence ratio between 0.6 and 1.2). The DeePMR provides an innovative way to perform model reduction and demonstrates the great potential of data-driven methods in the combustion area.

Joint Progressive and Coarse-to-fine Registration of Brain MRI via Deformation Field Integration and Non-Rigid Feature Fusion

Registration of brain MRI images requires to solve a deformation field, which is extremely difficult in aligning intricate brain tissues, e.g., subcortical nuclei, etc. Existing efforts resort to decomposing the target deformation field into intermediate sub-fields with either tiny motions, i.e., progressive registration stage by stage, or lower resolutions, i.e., coarse-to-fine estimation of the full-size deformation field. In this paper, we argue that those efforts are not mutually exclusive, and propose a unified framework for robust brain MRI registration in both progressive and coarse-to-fine manners simultaneously. Specifically, building on a dual-encoder U-Net, the fixed-moving MRI pair is encoded and decoded into multi-scale deformation sub-fields from coarse to fine. Each decoding block contains two proposed novel modules: i) in Deformation Field Integration (DFI), a single integrated sub-field is calculated, warping by which is equivalent to warping progressively by sub-fields from all previous decoding blocks, and ii) in Non-rigid Feature Fusion (NFF), features of the fixed-moving pair are aligned by DFI-integrated sub-field, and then fused to predict a finer sub-field. Leveraging both DFI and NFF, the target deformation field is factorized into multi-scale sub-fields, where the coarser fields alleviate the estimate of a finer one and the finer field learns to make up those misalignments insolvable by previous coarser ones. The extensive and comprehensive experimental results on both private and public datasets demonstrate a superior registration performance of brain MRI images over progressive registration only and coarse-to-fine estimation only, with an increase by at most 10% in the average Dice.