Large-scale Multi-sequence Pretraining for Generalizable MRI Analysis in Versatile Clinical Applications

Multi-sequence Magnetic Resonance Imaging (MRI) offers remarkable versatility, enabling the distinct visualization of different tissue types. Nevertheless, the inherent heterogeneity among MRI sequences poses significant challenges to the generalization capability of deep learning models. These challenges undermine model performance when faced with varying acquisition parameters, thereby severely restricting their clinical utility. In this study, we present PRISM, a foundation model PRe-trained with large-scale multI-Sequence MRI. We collected a total of 64 datasets from both public and private sources, encompassing a wide range of whole-body anatomical structures, with scans spanning diverse MRI sequences. Among them, 336,476 volumetric MRI scans from 34 datasets (8 public and 26 private) were curated to construct the largest multi-organ multi-sequence MRI pretraining corpus to date. We propose a novel pretraining paradigm that disentangles anatomically invariant features from sequence-specific variations in MRI, while preserving high-level semantic representations. We established a benchmark comprising 44 downstream tasks, including disease diagnosis, image segmentation, registration, progression prediction, and report generation. These tasks were evaluated on 32 public datasets and 5 private cohorts. PRISM consistently outperformed both non-pretrained models and existing foundation models, achieving first-rank results in 39 out of 44 downstream benchmarks with statistical significance improvements. These results underscore its ability to learn robust and generalizable representations across unseen data acquired under diverse MRI protocols. PRISM provides a scalable framework for multi-sequence MRI analysis, thereby enhancing the translational potential of AI in radiology. It delivers consistent performance across diverse imaging protocols, reinforcing its clinical applicability.

MolSnap: Snap-Fast Molecular Generation with Latent Variational Mean Flow

Molecular generation conditioned on textual descriptions is a fundamental task in computational chemistry and drug discovery. Existing methods often struggle to simultaneously ensure high-quality, diverse generation and fast inference. In this work, we propose a novel causality-aware framework that addresses these challenges through two key innovations. First, we introduce a Causality-Aware Transformer (CAT) that jointly encodes molecular graph tokens and text instructions while enforcing causal dependencies during generation. Second, we develop a Variational Mean Flow (VMF) framework that generalizes existing flow-based methods by modeling the latent space as a mixture of Gaussians, enhancing expressiveness beyond unimodal priors. VMF enables efficient one-step inference while maintaining strong generation quality and diversity. Extensive experiments on four standard molecular benchmarks demonstrate that our model outperforms state-of-the-art baselines, achieving higher novelty (up to 74.5\%), diversity (up to 70.3\%), and 100\% validity across all datasets. Moreover, VMF requires only one number of function evaluation (NFE) during conditional generation and up to five NFEs for unconditional generation, offering substantial computational efficiency over diffusion-based methods.

RefiDiff: Refinement-Aware Diffusion for Efficient Missing Data Imputation

Missing values in high-dimensional, mixed-type datasets pose significant challenges for data imputation, particularly under Missing Not At Random (MNAR) mechanisms. Existing methods struggle to integrate local and global data characteristics, limiting performance in MNAR and high-dimensional settings. We propose an innovative framework, RefiDiff, combining local machine learning predictions with a novel Mamba-based denoising network capturing interrelationships among distant features and samples. Our approach leverages pre-refinement for initial warm-up imputations and post-refinement to polish results, enhancing stability and accuracy. By encoding mixed-type data into unified tokens, RefiDiff enables robust imputation without architectural or hyperparameter tuning. RefiDiff outperforms state-of-the-art (SOTA) methods across missing-value settings, excelling in MNAR with a 4x faster training time than SOTA DDPM-based approaches. Extensive evaluations on nine real-world datasets demonstrate its robustness, scalability, and effectiveness in handling complex missingness patterns.

Joint stochastic localization and applications

Stochastic localization is a pathwise analysis technique originating from convex geometry. This paper explores certain algorithmic aspects of stochastic localization as a computational tool. First, we unify various existing stochastic localization schemes and discuss their localization rates and regularization. We then introduce a joint stochastic localization framework for constructing couplings between probability distributions. As an initial application, we extend the optimal couplings between normal distributions under the 2-Wasserstein distance to log-concave distributions and derive a normal approximation result. As a further application, we introduce a family of distributional distances based on the couplings induced by joint stochastic localization. Under a specific choice of the localization process, the induced distance is topologically equivalent to the 2-Wasserstein distance for probability measures supported on a common compact set. Moreover, weighted versions of this distance are related to several statistical divergences commonly used in practice. The proposed distances also motivate new methods for distribution estimation that are of independent interest.

Compact Recurrent Transformer with Persistent Memory

The Transformer architecture has shown significant success in many language processing and visual tasks. However, the method faces challenges in efficiently scaling to long sequences because the self-attention computation is quadratic with respect to the input length. To overcome this limitation, several approaches scale to longer sequences by breaking long sequences into a series of segments, restricting self-attention to local dependencies between tokens within each segment and using a memory mechanism to manage information flow between segments. However, these approached generally introduce additional compute overhead that restricts them from being used for applications where limited compute memory and power are of great concern (such as edge computing). We propose a novel and efficient Compact Recurrent Transformer (CRT), which combines shallow Transformer models that process short local segments with recurrent neural networks to compress and manage a single persistent memory vector that summarizes long-range global information between segments. We evaluate CRT on WordPTB and WikiText-103 for next-token-prediction tasks, as well as on the Toyota Smarthome video dataset for classification. CRT achieves comparable or superior prediction results to full-length Transformers in the language datasets while using significantly shorter segments (half or quarter size) and substantially reduced FLOPs. Our approach also demonstrates state-of-the-art performance on the Toyota Smarthome video dataset.

Mol-CADiff: Causality-Aware Autoregressive Diffusion for Molecule Generation

The design of novel molecules with desired properties is a key challenge in drug discovery and materials science. Traditional methods rely on trial-and-error, while recent deep learning approaches have accelerated molecular generation. However, existing models struggle with generating molecules based on specific textual descriptions. We introduce Mol-CADiff, a novel diffusion-based framework that uses causal attention mechanisms for text-conditional molecular generation. Our approach explicitly models the causal relationship between textual prompts and molecular structures, overcoming key limitations in existing methods. We enhance dependency modeling both within and across modalities, enabling precise control over the generation process. Our extensive experiments demonstrate that Mol-CADiff outperforms state-of-the-art methods in generating diverse, novel, and chemically valid molecules, with better alignment to specified properties, enabling more intuitive language-driven molecular design.

Model-Assisted Learning for Adaptive Cooperative Perception of Connected Autonomous Vehicles

Cooperative perception (CP) is a key technology to facilitate consistent and accurate situational awareness for connected and autonomous vehicles (CAVs). To tackle the network resource inefficiency issue in traditional broadcast-based CP, unicast-based CP has been proposed to associate CAV pairs for cooperative perception via vehicle-to-vehicle transmission. In this paper, we investigate unicast-based CP among CAV pairs. With the consideration of dynamic perception workloads and channel conditions due to vehicle mobility and dynamic radio resource availability, we propose an adaptive cooperative perception scheme for CAV pairs in a mixed-traffic autonomous driving scenario with both CAVs and human-driven vehicles. We aim to determine when to switch between cooperative perception and stand-alone perception for each CAV pair, and allocate communication and computing resources to cooperative CAV pairs for maximizing the computing efficiency gain under perception task delay requirements. A model-assisted multi-agent reinforcement learning (MARL) solution is developed, which integrates MARL for an adaptive CAV cooperation decision and an optimization model for communication and computing resource allocation. Simulation results demonstrate the effectiveness of the proposed scheme in achieving high computing efficiency gain, as compared with benchmark schemes.

SCP-GAN: Self-Correcting Discriminator Optimization for Training Consistency Preserving Metric GAN on Speech Enhancement Tasks

In recent years, Generative Adversarial Networks (GANs) have produced significantly improved results in speech enhancement (SE) tasks. They are difficult to train, however. In this work, we introduce several improvements to the GAN training schemes, which can be applied to most GAN-based SE models. We propose using consistency loss functions, which target the inconsistency in time and time-frequency domains caused by Fourier and Inverse Fourier Transforms. We also present self-correcting optimization for training a GAN discriminator on SE tasks, which helps avoid "harmful" training directions for parts of the discriminator loss function. We have tested our proposed methods on several state-of-the-art GAN-based SE models and obtained consistent improvements, including new state-of-the-art results for the Voice Bank+DEMAND dataset.

Breaking Time Invariance: Assorted-Time Normalization for RNNs

Methods such as Layer Normalization (LN) and Batch Normalization (BN) have proven to be effective in improving the training of Recurrent Neural Networks (RNNs). However, existing methods normalize using only the instantaneous information at one particular time step, and the result of the normalization is a preactivation state with a time-independent distribution. This implementation fails to account for certain temporal differences inherent in the inputs and the architecture of RNNs. Since these networks share weights across time steps, it may also be desirable to account for the connections between time steps in the normalization scheme. In this paper, we propose a normalization method called Assorted-Time Normalization (ATN), which preserves information from multiple consecutive time steps and normalizes using them. This setup allows us to introduce longer time dependencies into the traditional normalization methods without introducing any new trainable parameters. We present theoretical derivations for the gradient propagation and prove the weight scaling invariance property. Our experiments applying ATN to LN demonstrate consistent improvement on various tasks, such as Adding, Copying, and Denoise Problems and Language Modeling Problems.

Orthogonal Gated Recurrent Unit with Neumann-Cayley Transformation

In recent years, using orthogonal matrices has been shown to be a promising approach in improving Recurrent Neural Networks (RNNs) with training, stability, and convergence, particularly, to control gradients. While Gated Recurrent Unit (GRU) and Long Short Term Memory (LSTM) architectures address the vanishing gradient problem by using a variety of gates and memory cells, they are still prone to the exploding gradient problem. In this work, we analyze the gradients in GRU and propose the usage of orthogonal matrices to prevent exploding gradient problems and enhance long-term memory. We study where to use orthogonal matrices and we propose a Neumann series-based Scaled Cayley transformation for training orthogonal matrices in GRU, which we call Neumann-Cayley Orthogonal GRU, or simply NC-GRU. We present detailed experiments of our model on several synthetic and real-world tasks, which show that NC-GRU significantly outperforms GRU as well as several other RNNs.