MoME: Mixture of Multimodal Experts for Cancer Survival Prediction

Survival analysis, as a challenging task, requires integrating Whole Slide Images (WSIs) and genomic data for comprehensive decision-making. There are two main challenges in this task: significant heterogeneity and complex inter- and intra-modal interactions between the two modalities. Previous approaches utilize co-attention methods, which fuse features from both modalities only once after separate encoding. However, these approaches are insufficient for modeling the complex task due to the heterogeneous nature between the modalities. To address these issues, we propose a Biased Progressive Encoding (BPE) paradigm, performing encoding and fusion simultaneously. This paradigm uses one modality as a reference when encoding the other. It enables deep fusion of the modalities through multiple alternating iterations, progressively reducing the cross-modal disparities and facilitating complementary interactions. Besides modality heterogeneity, survival analysis involves various biomarkers from WSIs, genomics, and their combinations. The critical biomarkers may exist in different modalities under individual variations, necessitating flexible adaptation of the models to specific scenarios. Therefore, we further propose a Mixture of Multimodal Experts (MoME) layer to dynamically selects tailored experts in each stage of the BPE paradigm. Experts incorporate reference information from another modality to varying degrees, enabling a balanced or biased focus on different modalities during the encoding process. Extensive experimental results demonstrate the superior performance of our method on various datasets, including TCGA-BLCA, TCGA-UCEC and TCGA-LUAD. Codes are available at https://github.com/BearCleverProud/MoME.

Self-Supervised Learning for Medical Image Data with Anatomy-Oriented Imaging Planes

Self-supervised learning has emerged as a powerful tool for pretraining deep networks on unlabeled data, prior to transfer learning of target tasks with limited annotation. The relevance between the pretraining pretext and target tasks is crucial to the success of transfer learning. Various pretext tasks have been proposed to utilize properties of medical image data (e.g., three dimensionality), which are more relevant to medical image analysis than generic ones for natural images. However, previous work rarely paid attention to data with anatomy-oriented imaging planes, e.g., standard cardiac magnetic resonance imaging views. As these imaging planes are defined according to the anatomy of the imaged organ, pretext tasks effectively exploiting this information can pretrain the networks to gain knowledge on the organ of interest. In this work, we propose two complementary pretext tasks for this group of medical image data based on the spatial relationship of the imaging planes. The first is to learn the relative orientation between the imaging planes and implemented as regressing their intersecting lines. The second exploits parallel imaging planes to regress their relative slice locations within a stack. Both pretext tasks are conceptually straightforward and easy to implement, and can be combined in multitask learning for better representation learning. Thorough experiments on two anatomical structures (heart and knee) and representative target tasks (semantic segmentation and classification) demonstrate that the proposed pretext tasks are effective in pretraining deep networks for remarkably boosted performance on the target tasks, and superior to other recent approaches.

Federated Modality-specific Encoders and Multimodal Anchors for Personalized Brain Tumor Segmentation

Most existing federated learning (FL) methods for medical image analysis only considered intramodal heterogeneity, limiting their applicability to multimodal imaging applications. In practice, it is not uncommon that some FL participants only possess a subset of the complete imaging modalities, posing inter-modal heterogeneity as a challenge to effectively training a global model on all participants' data. In addition, each participant would expect to obtain a personalized model tailored for its local data characteristics from the FL in such a scenario. In this work, we propose a new FL framework with federated modality-specific encoders and multimodal anchors (FedMEMA) to simultaneously address the two concurrent issues. Above all, FedMEMA employs an exclusive encoder for each modality to account for the inter-modal heterogeneity in the first place. In the meantime, while the encoders are shared by the participants, the decoders are personalized to meet individual needs. Specifically, a server with full-modal data employs a fusion decoder to aggregate and fuse representations from all modality-specific encoders, thus bridging the modalities to optimize the encoders via backpropagation reversely. Meanwhile, multiple anchors are extracted from the fused multimodal representations and distributed to the clients in addition to the encoder parameters. On the other end, the clients with incomplete modalities calibrate their missing-modal representations toward the global full-modal anchors via scaled dot-product cross-attention, making up the information loss due to absent modalities while adapting the representations of present ones. FedMEMA is validated on the BraTS 2020 benchmark for multimodal brain tumor segmentation. Results show that it outperforms various up-to-date methods for multimodal and personalized FL and that its novel designs are effective. Our code is available.

Simultaneous Alignment and Surface Regression Using Hybrid 2D-3D Networks for 3D Coherent Layer Segmentation of Retinal OCT Images with Full and Sparse Annotations

Layer segmentation is important to quantitative analysis of retinal optical coherence tomography (OCT). Recently, deep learning based methods have been developed to automate this task and yield remarkable performance. However, due to the large spatial gap and potential mismatch between the B-scans of an OCT volume, all of them were based on 2D segmentation of individual B-scans, which may lose the continuity and diagnostic information of the retinal layers in 3D space. Besides, most of these methods required dense annotation of the OCT volumes, which is labor-intensive and expertise-demanding. This work presents a novel framework based on hybrid 2D-3D convolutional neural networks (CNNs) to obtain continuous 3D retinal layer surfaces from OCT volumes, which works well with both full and sparse annotations. The 2D features of individual B-scans are extracted by an encoder consisting of 2D convolutions. These 2D features are then used to produce the alignment displacement vectors and layer segmentation by two 3D decoders coupled via a spatial transformer module. Two losses are proposed to utilize the retinal layers' natural property of being smooth for B-scan alignment and layer segmentation, respectively, and are the key to the semi-supervised learning with sparse annotation. The entire framework is trained end-to-end. To the best of our knowledge, this is the first work that attempts 3D retinal layer segmentation in volumetric OCT images based on CNNs. Experiments on a synthetic dataset and three public clinical datasets show that our framework can effectively align the B-scans for potential motion correction, and achieves superior performance to state-of-the-art 2D deep learning methods in terms of both layer segmentation accuracy and cross-B-scan 3D continuity in both fully and semi-supervised settings, thus offering more clinical values than previous works.

Automatic view plane prescription for cardiac magnetic resonance imaging via supervision by spatial relationship between views

Background: View planning for the acquisition of cardiac magnetic resonance (CMR) imaging remains a demanding task in clinical practice. Purpose: Existing approaches to its automation relied either on an additional volumetric image not typically acquired in clinic routine, or on laborious manual annotations of cardiac structural landmarks. This work presents a clinic-compatible, annotation-free system for automatic CMR view planning. Methods: The system mines the spatial relationship, more specifically, locates the intersecting lines, between the target planes and source views, and trains deep networks to regress heatmaps defined by distances from the intersecting lines. The intersection lines are the prescription lines prescribed by the technologists at the time of image acquisition using cardiac landmarks, and retrospectively identified from the spatial relationship. As the spatial relationship is self-contained in properly stored data, the need for additional manual annotation is eliminated. In addition, the interplay of multiple target planes predicted in a source view is utilized in a stacked hourglass architecture to gradually improve the regression. Then, a multi-view planning strategy is proposed to aggregate information from the predicted heatmaps for all the source views of a target plane, for a globally optimal prescription, mimicking the similar strategy practiced by skilled human prescribers. Results: The experiments include 181 CMR exams. Our system yields the mean angular difference and point-to-plane distance of 5.68 degrees and 3.12 mm, respectively. It not only achieves superior accuracy to existing approaches including conventional atlas-based and newer deep-learning-based in prescribing the four standard CMR planes but also demonstrates prescription of the first cardiac-anatomy-oriented plane(s) from the body-oriented scout.

A Global Transport Capacity Risk Prediction Method for Rail Transit Based on Gaussian Bayesian Network

Aiming at the prediction problem of transport capacity risk caused by the mismatch between the carrying capacity of rail transit network and passenger flow demand, this paper proposes an explainable prediction method of rail transit network transport capacity risk based on linear Gaussian Bayesian network. This method obtains the training data of the prediction model based on the simulation model of the rail transit system with a three-layer structure including rail transit network, train flow and passenger flow. A Bayesian network structure construction method based on the topology of the rail transit network is proposed, and the MLE (Maximum Likelihood Estimation) method is used to realize the parameter learning of the Bayesian network. Finally, the effectiveness of the proposed method is verified by simulation examples.

Gait Cycle-Inspired Learning Strategy for Continuous Prediction of Knee Joint Trajectory from sEMG

Predicting lower limb motion intent is vital for controlling exoskeleton robots and prosthetic limbs. Surface electromyography (sEMG) attracts increasing attention in recent years as it enables ahead-of-time prediction of motion intentions before actual movement. However, the estimation performance of human joint trajectory remains a challenging problem due to the inter- and intra-subject variations. The former is related to physiological differences (such as height and weight) and preferred walking patterns of individuals, while the latter is mainly caused by irregular and gait-irrelevant muscle activity. This paper proposes a model integrating two gait cycle-inspired learning strategies to mitigate the challenge for predicting human knee joint trajectory. The first strategy is to decouple knee joint angles into motion patterns and amplitudes former exhibit low variability while latter show high variability among individuals. By learning through separate network entities, the model manages to capture both the common and personalized gait features. In the second, muscle principal activation masks are extracted from gait cycles in a prolonged walk. These masks are used to filter out components unrelated to walking from raw sEMG and provide auxiliary guidance to capture more gait-related features. Experimental results indicate that our model could predict knee angles with the average root mean square error (RMSE) of 3.03(0.49) degrees and 50ms ahead of time. To our knowledge this is the best performance in relevant literatures that has been reported, with reduced RMSE by at least 9.5%.

You've Got Two Teachers: Co-evolutionary Image and Report Distillation for Semi-supervised Anatomical Abnormality Detection in Chest X-ray

Chest X-ray (CXR) anatomical abnormality detection aims at localizing and characterising cardiopulmonary radiological findings in the radiographs, which can expedite clinical workflow and reduce observational oversights. Most existing methods attempted this task in either fully supervised settings which demanded costly mass per-abnormality annotations, or weakly supervised settings which still lagged badly behind fully supervised methods in performance. In this work, we propose a co-evolutionary image and report distillation (CEIRD) framework, which approaches semi-supervised abnormality detection in CXR by grounding the visual detection results with text-classified abnormalities from paired radiology reports, and vice versa. Concretely, based on the classical teacher-student pseudo label distillation (TSD) paradigm, we additionally introduce an auxiliary report classification model, whose prediction is used for report-guided pseudo detection label refinement (RPDLR) in the primary vision detection task. Inversely, we also use the prediction of the vision detection model for abnormality-guided pseudo classification label refinement (APCLR) in the auxiliary report classification task, and propose a co-evolution strategy where the vision and report models mutually promote each other with RPDLR and APCLR performed alternatively. To this end, we effectively incorporate the weak supervision by reports into the semi-supervised TSD pipeline. Besides the cross-modal pseudo label refinement, we further propose an intra-image-modal self-adaptive non-maximum suppression, where the pseudo detection labels generated by the teacher vision model are dynamically rectified by high-confidence predictions by the student. Experimental results on the public MIMIC-CXR benchmark demonstrate CEIRD's superior performance to several up-to-date weakly and semi-supervised methods.

MEPNet: A Model-Driven Equivariant Proximal Network for Joint Sparse-View Reconstruction and Metal Artifact Reduction in CT Images

Sparse-view computed tomography (CT) has been adopted as an important technique for speeding up data acquisition and decreasing radiation dose. However, due to the lack of sufficient projection data, the reconstructed CT images often present severe artifacts, which will be further amplified when patients carry metallic implants. For this joint sparse-view reconstruction and metal artifact reduction task, most of the existing methods are generally confronted with two main limitations: 1) They are almost built based on common network modules without fully embedding the physical imaging geometry constraint of this specific task into the dual-domain learning; 2) Some important prior knowledge is not deeply explored and sufficiently utilized. Against these issues, we specifically construct a dual-domain reconstruction model and propose a model-driven equivariant proximal network, called MEPNet. The main characteristics of MEPNet are: 1) It is optimization-inspired and has a clear working mechanism; 2) The involved proximal operator is modeled via a rotation equivariant convolutional neural network, which finely represents the inherent rotational prior underlying the CT scanning that the same organ can be imaged at different angles. Extensive experiments conducted on several datasets comprehensively substantiate that compared with the conventional convolution-based proximal network, such a rotation equivariance mechanism enables our proposed method to achieve better reconstruction performance with fewer network parameters. We will release the code at \url{https://github.com/hongwang01/MEPNet}.

Understanding Text-driven Motion Synthesis with Keyframe Collaboration via Diffusion Models

The emergence of text-driven motion synthesis technique provides animators with great potential to create efficiently. However, in most cases, textual expressions only contain general and qualitative motion descriptions, while lack fine depiction and sufficient intensity, leading to the synthesized motions that either (a) semantically compliant but uncontrollable over specific pose details, or (b) even deviates from the provided descriptions, bringing animators with undesired cases. In this paper, we propose DiffKFC, a conditional diffusion model for text-driven motion synthesis with keyframes collaborated. Different from plain text-driven designs, full interaction among texts, keyframes and the rest diffused frames are conducted at training, enabling realistic generation under efficient, collaborative dual-level control: coarse guidance at semantic level, with only few keyframes for direct and fine-grained depiction down to body posture level, to satisfy animator requirements without tedious labor. Specifically, we customize efficient Dilated Mask Attention modules, where only partial valid tokens participate in local-to-global attention, indicated by the dilated keyframe mask. For user flexibility, DiffKFC supports adjustment on importance of fine-grained keyframe control. Experimental results show that our model achieves state-of-the-art performance on text-to-motion datasets HumanML3D and KIT.