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 Deep Learning


A Koopman-PINN Framework for Epidemic Models: Parameter Inference and Forecasting

arXiv.org Machine Learning

We propose a Koopman-enhanced physics-informed neural network (K--PINN) framework for parameter inference and forecasting in nonlinear epidemic models. This method combines Koopman operator theory and physics-informed learning. It maps epidemic states into a latent observable space where the dynamics evolve approximately linearly while satisfying the governing epidemic equations through automatic differentiation. This integration improves interpretability, parameter identifiability, and long-term predictive stability. We apply the proposed framework to a normalized SEIRSD epidemic model and evaluate it using synthetic monkeypox (Mpox) data and real-world datasets from Germany, Morocco, and Sweden for the SARS-CoV-2 virus. Synthetic trajectories are generated using a structure-preserving, nonstandard finite difference scheme to ensure reliable training data. Numerical results demonstrate that K--PINN achieves more accurate parameter estimation, trajectory reconstruction, and long-term forecasting than classical PINNs and Koopman-EDMD approaches. These results suggest that K--PINN is an effective machine learning framework for epidemic modeling that can be extended to more complex systems.


Score-Based Martingale Posteriors for Deep Neural Networks

arXiv.org Machine Learning

In this paper we investigate the efficacy of the score-based martingale posteriors (SMP) (Cui & Walker, 2025; Fong et al., 2023) in the context of modern and large-scale machine learning problems and its potential for meaningful uncertainty quantification. SMPs work with a stochastic gradient ascent-type recursion on the parameter space of stochastic models and construct a martingale on the parameter space. Under simple mathematical assumptions, the recursion can be built so that the parameters form a martingale sequence which possesses a limiting, in time, random variable, the latter of which can be simulated very quickly, in contrast to Monte Carlo-based methods such as Markov chain Monte Carlo. In this expository paper we explore the SMP for inferring the parameters of deep neural networks (DNNs) and, where feasible, compare our results to the state-of-the-art Monte Carlo methods aimed at inferring conventional Bayesian posteriors.


Ricci-Filtration: Boosting Retrieval-Augmented Generation Reranker to Query-Answer Tasks by Discrete Ricci Flow

arXiv.org Machine Learning

Ricci flow is a curvature-guided diffusion process that deforms space by shrinking regions of high positive curvature and expanding those with negative curvature. Similarly, discrete Ricci flow on weighted graphs modifies edge weights by shrinking edges with positive Ricci curvature and stretching those with negative Ricci curvature, effectively increasing the separation between clusters. Inspired by these two cornerstone works, we propose a geometry-based RAG reranker enhancement procedure called Ricci-Filtration. By modeling the input query and initial retrieved chunks as a network, where the input query and chunks serve as nodes and embedding-based pairwise relations define an initial graph, Ricci-Filtration leverages discrete curvature and Ricci flow to evaluate the structural importance of each chunk with respect to the user query. The system first filters the initial chunks based on their geometric curvature relative to the query; then, a reranker processes the remaining chunks to enhance generative performance. We theoretically prove that normalized discrete Ricci flow can detect community structures by identifying distinct asymptotic behaviors in edge weights. This supports the removal of ``noisy'' document chunks characterized by large weights and negative Ricci curvature relative to the query node. Extensive experiments confirm that Ricci-Filtration outperforms several baseline reranking methods in accuracy, precision, recall, and F1 scores. Furthermore, ablation studies demonstrate that the Ricci-Filtration generally outperforms the baseline under various settings, highlighting the framework's robustness across different architectures.


Understanding the Evolution of the Neural Tangent Kernel at the Edge of Stability

Neural Information Processing Systems

The study of Neural Tangent Kernels (NTKs) in deep learning has drawn increasing attention in recent years. NTKs typically actively change during training and are related to feature learning. In parallel, recent work on Gradient Descent (GD) has found a phenomenon called Edge of Stability (EoS), in which the largest eigenvalue of the NTK oscillates around a value inversely proportional to the step size. However, although follow-up works have explored the underlying mechanism of such eigenvalue behavior in depth, the understanding of the behavior of the NTK eigenvectors during EoS is still missing. This paper examines the dynamics of NTK eigenvectors during EoS in detail. Across different architectures, we observe that larger learning rates cause the leading eigenvectors of the final NTK, as well as the full NTK matrix, to have greater alignment with the training target. We then study the underlying mechanism of this phenomenon and provide a theoretical analysis for a two-layer linear network. Our study enhances the understanding of GD training dynamics in deep learning.


Scaling Embedding Layers in Language Models

Neural Information Processing Systems

We propose SCONE (Scalable, Contextualized, Offloaded, N-gram Embedding), a new method for extending input embedding layers to enhance language model performance. To avoid increased decoding costs, SCONE retains the original vocabulary while introducing embeddings for a set of frequent n-grams. These embeddings provide contextualized representation for each input token and are learned with a separate model during training. After training, embeddings are precomputed and stored in off-accelerator memory; during inference, querying them has minimal impact on latency due to the low complexity of embedding lookups. SCONE enables two new scaling strategies: increasing the number of n-gram embeddings and scaling the model used to learn them, both while maintaining fixed accelerator usage during inference (in terms of FLOPS and memory). We show that scaling both aspects enables a model with 1B accelerator-resident parameters to outperform a 1.9B-parameter baseline across diverse corpora, while using only about half the FLOPS and accelerator memory during inference.


Compress & Cache: Vision token compression for efficient generation and retrieval

Neural Information Processing Systems

This work aims to compress the vision tokens of an LVLM into a representation that is simultaneously suitable for (a) generative and (b) discriminative tasks, (c) is nearly lossless, and (d) storage-efficient. To this end, we propose C&C, a novel compression method that leverages the LVLM itself for task-agnostic visual token compression. Unlike prior methods that perform token reduction on-the-fly, our approach offloads computation to a dedicated, upfront indexing stage, effectively decoupling compression from generation. This enables learning more powerful representations for generation during inference. At the core of C&C is a "doubleforward pass" training strategy. During the first forward pass, the LLM (of the LVLM) creates a bottleneck by compressing the dense visual tokens into a few summary tokens.


On Inductive Biases That Enable Generalization of Diffusion Transformers

Neural Information Processing Systems

Recent work studying the generalization of diffusion models with locally linear UNet-based denoisers reveals inductive biases that can be expressed via geometryadaptive harmonic bases. For such locally linear UNets, these geometry-adaptive harmonic bases can be conveniently visualized through the eigen-decomposition of a UNet's Jacobian matrix. In practice, however, more recent denoising networks are often transformer-based, e.g., the diffusion transformer (DiT). Due to the presence of nonlinear operations, similar eigen-decomposition analyses cannot be used to reveal the inductive biases of transformer-based denoisers. This motivates our search for alternative ways to explain the strong generalization ability observed in DiT models.


SAM2Flow: Interactive Optical Flow Estimation with Dual Memory for in vivo Microcirculation Analysis

Neural Information Processing Systems

Analysis of noninvasive microvascular blood flow can improve the diagnosis, prognosis, and management of many medical conditions, including cardiovascular, peripheral vascular, and sickle cell disease. This paper introduces SAM2Flow, an interactive optical flow estimation model to analyze long Oblique Back-illumination Microscopy (OBM) videos of in vivo microvascular flow. Inspired by the Segment Anything Model (SAM2), SAM2Flow enables users to specify regions of interest through user prompts for focused flow estimation. SAM2Flow also incorporates a dual memory attention mechanism, comprising both motion and context memory, to achieve efficient and stable flow estimations over extended video sequences. According to our experiments, SAM2Flow achieves SOTA accuracy in foreground optical flow estimation on both microvascular flow and public datasets, with a fast inference speed of over 20fps on 512 512inputs. Based on the temporally robust flow estimation, SAM2Flow demonstrated superior performance in downstream physiological applications compared to existing models.


Self Iterative Label Refinement via Robust Unlabeled Learning

Neural Information Processing Systems

Recent advances in large language models (LLMs) have yielded impressive performance on various tasks, yet they often depend on high-quality feedback that can be costly. Self-refinement methods attempt to leverage LLMs' internal evaluation mechanisms with minimal human supervision; however, these approaches frequently suffer from inherent biases and overconfidence, especially in domains where the models lack sufficient internal knowledge, resulting in performance degradation. As an initial step toward enhancing self-refinement for broader applications, we introduce an iterative refinement pipeline that employs the Unlabeled-Unlabeled learning framework to improve LLM-generated pseudo-labels for classification tasks.


Mixture-of-Experts Operator Transformer for Large-Scale PDEPre-Training

Neural Information Processing Systems

Pre-training has proven effective in addressing data scarcity and performance limitations in solving PDE problems with neural operators. However, challenges remain due to the heterogeneity of PDE datasets in equation types, which leads to high errors in mixed training. Additionally, dense pre-training models that scale parameters by increasing network width or depth incur significant inference costs. To tackle these challenges, we propose a novel Mixture-of-Experts Pre-training Operator Transformer (MoE-POT), a sparse-activated architecture that scales parameters efficiently while controlling inference costs. Specifically, our model adopts a layer-wise router-gating network to dynamically select 4 routed experts from 16 expert networks during inference, enabling the model to focus on equationspecific features. Meanwhile, we also integrate 2 shared experts, aiming to capture common properties of PDE and reduce redundancy among routed experts. The final output is computed as the weighted average of the results from all activated experts.