arXiv subjects

Jianxin Li

Publications and source records attributed to Jianxin Li.

At least 91 records · Page 5Linked to original sources

arXiv2025

OmniArch: Building Foundation Model For Scientific Computing

Foundation models have revolutionized language modeling, while whether this success is replicated in scientific computing remains unexplored. We present OmniArch, the first prototype aiming at solving multi-scale and multi-physics scientific computing problems with physical alignment. We addressed all three challenges with one unified architecture. Its pre-training stage contains a Fourier Encoder-decoder fading out the disharmony across separated dimensions and a Transformer backbone integrating quantities through temporal dynamics, and the novel PDE-Aligner performs physics-informed fine-tuning under flexible conditions. As far as we know, we first conduct 1D-2D-3D united pre-training on the PDEBench, and it sets not only new performance benchmarks for 1D, 2D, and 3D PDEs but also demonstrates exceptional adaptability to new physics via in-context and zero-shot learning approaches, which supports realistic engineering applications and foresight physics discovery.

cs.LG↗

arXiv2025

Towards Objective Fine-tuning: How LLMs' Prior Knowledge Causes Potential Poor Calibration?

Fine-tuned Large Language Models (LLMs) often demonstrate poor calibration, with their confidence scores misaligned with actual performance. While calibration has been extensively studied in models trained from scratch, the impact of LLMs' prior knowledge on calibration during fine-tuning remains understudied. Our research reveals that LLMs' prior knowledge causes potential poor calibration due to the ubiquitous presence of known data in real-world fine-tuning, which appears harmful for calibration. Specifically, data aligned with LLMs' prior knowledge would induce overconfidence, while new knowledge improves calibration. Our findings expose a tension: LLMs' encyclopedic knowledge, while enabling task versatility, undermines calibration through unavoidable knowledge overlaps. To address this, we propose CogCalib, a cognition-aware framework that applies targeted learning strategies according to the model's prior knowledge. Experiments across 7 tasks using 3 LLM families prove that CogCalib significantly improves calibration while maintaining performance, achieving an average 57\% reduction in ECE compared to standard fine-tuning in Llama3-8B. These improvements generalize well to out-of-domain tasks, enhancing the objectivity and reliability of domain-specific LLMs, and making them more trustworthy for critical human-AI interaction applications.

cs.CL↗

arXiv2025

Galaxy Walker: Geometry-aware VLMs For Galaxy-scale Understanding

Modern vision-language models (VLMs) develop patch embedding and convolution backbone within vector space, especially Euclidean ones, at the very founding. When expanding VLMs to a galaxy scale for understanding astronomical phenomena, the integration of spherical space for planetary orbits and hyperbolic spaces for black holes raises two formidable challenges. a) The current pre-training model is confined to Euclidean space rather than a comprehensive geometric embedding. b) The predominant architecture lacks suitable backbones for anisotropic physical geometries. In this paper, we introduced Galaxy-Walker, a geometry-aware VLM, for the universe-level vision understanding tasks. We proposed the geometry prompt that generates geometry tokens by random walks across diverse spaces on a multi-scale physical graph, along with a geometry adapter that compresses and reshapes the space anisotropy in a mixture-of-experts manner. Extensive experiments demonstrate the effectiveness of our approach, with Galaxy-Walker achieving state-of-the-art performance in both galaxy property estimation ($R^2$ scores up to $0.91$) and morphology classification tasks (up to $+0.17$ F1 improvement in challenging features), significantly outperforming both domain-specific models and general-purpose VLMs.

cs.LG↗

arXiv2025

FreqMoE: Dynamic Frequency Enhancement for Neural PDE Solvers

Fourier Neural Operators (FNO) have emerged as promising solutions for efficiently solving partial differential equations (PDEs) by learning infinite-dimensional function mappings through frequency domain transformations. However, the sparsity of high-frequency signals limits computational efficiency for high-dimensional inputs, and fixed-pattern truncation often causes high-frequency signal loss, reducing performance in scenarios such as high-resolution inputs or long-term predictions. To address these challenges, we propose FreqMoE, an efficient and progressive training framework that exploits the dependency of high-frequency signals on low-frequency components. The model first learns low-frequency weights and then applies a sparse upward-cycling strategy to construct a mixture of experts (MoE) in the frequency domain, effectively extending the learned weights to high-frequency regions. Experiments on both regular and irregular grid PDEs demonstrate that FreqMoE achieves up to 16.6% accuracy improvement while using merely 2.1% parameters (47.32x reduction) compared to dense FNO. Furthermore, the approach demonstrates remarkable stability in long-term predictions and generalizes seamlessly to various FNO variants and grid structures, establishing a new ``Low frequency Pretraining, High frequency Fine-tuning'' paradigm for solving PDEs.

cs.LG↗

arXiv2025

Privacy-Preserving Federated Embedding Learning for Localized Retrieval-Augmented Generation

Retrieval-Augmented Generation (RAG) has recently emerged as a promising solution for enhancing the accuracy and credibility of Large Language Models (LLMs), particularly in Question & Answer tasks. This is achieved by incorporating proprietary and private data from integrated databases. However, private RAG systems face significant challenges due to the scarcity of private domain data and critical data privacy issues. These obstacles impede the deployment of private RAG systems, as developing privacy-preserving RAG systems requires a delicate balance between data security and data availability. To address these challenges, we regard federated learning (FL) as a highly promising technology for privacy-preserving RAG services. We propose a novel framework called Federated Retrieval-Augmented Generation (FedE4RAG). This framework facilitates collaborative training of client-side RAG retrieval models. The parameters of these models are aggregated and distributed on a central-server, ensuring data privacy without direct sharing of raw data. In FedE4RAG, knowledge distillation is employed for communication between the server and client models. This technique improves the generalization of local RAG retrievers during the federated learning process. Additionally, we apply homomorphic encryption within federated learning to safeguard model parameters and mitigate concerns related to data leakage. Extensive experiments conducted on the real-world dataset have validated the effectiveness of FedE4RAG. The results demonstrate that our proposed framework can markedly enhance the performance of private RAG systems while maintaining robust data privacy protection.

cs.CL↗

arXiv2025

Instructing the Architecture Search for Spatial-temporal Sequence Forecasting with LLM

Spatial-temporal sequence forecasting (STSF) is a long-standing research problem with widespread real-world applications. Neural architecture search (NAS), which automates the neural network design, has been shown effective in tackling the STSF problem. However, the existing NAS methods for STSF focus on generating architectures in a time-consuming data-driven fashion, which heavily limits their ability to use background knowledge and explore the complicated search trajectory. Large language models (LLMs) have shown remarkable ability in decision-making with comprehensive internal world knowledge, but how it could benefit NAS for STSF remains unexplored. In this paper, we propose a novel NAS method for STSF based on LLM. Instead of directly generate architectures with LLM, We inspire the LLM's capability with a multi-level enhancement mechanism. Specifically, on the step-level, we decompose the generation task into decision steps with powerful prompt engineering and inspire LLM to serve as instructor for architecture search based on its internal knowledge. On the instance-level, we utilize a one-step tuning framework to quickly evaluate the architecture instance and a memory bank to cumulate knowledge to improve LLM's search ability. On the task-level, we propose a two-stage architecture search, balancing the exploration stage and optimization stage, to reduce the possibility of being trapped in local optima. Extensive experimental results demonstrate that our method can achieve competitive effectiveness with superior efficiency against existing NAS methods for STSF.

cs.CL↗

arXiv2025

PipeBoost: Resilient Pipelined Architecture for Fast Serverless LLM Scaling

This paper presents PipeBoost, a low-latency LLM serving system for multi-GPU (serverless) clusters, which can rapidly launch inference services in response to bursty requests without preemptively over-provisioning GPUs. Many LLM inference tasks rely on the same base model (e.g., LoRA). To leverage this, PipeBoost introduces fault-tolerant pipeline parallelism across both model loading and inference stages. This approach maximizes aggregate PCIe bandwidth and parallel computation across GPUs, enabling faster generation of the first token. PipeBoost also introduces recovery techniques that enable uninterrupted inference services by utilizing the shared advantages of multiple GPUs. Experimental results show that, compared to state-of-the-art low-latency LLM serving systems, PipeBoost reduces inference latency by 31% to 49.8%. For certain models (e.g., OPT-1.3B), PipeBoost achieves cold-start latencies in the range of a few hundred microseconds.

cs.DC↗

arXiv2025

BotUmc: An Uncertainty-Aware Twitter Bot Detection with Multi-view Causal Inference

Social bots have become widely known by users of social platforms. To prevent social bots from spreading harmful speech, many novel bot detections are proposed. However, with the evolution of social bots, detection methods struggle to give high-confidence answers for samples. This motivates us to quantify the uncertainty of the outputs, informing the confidence of the results. Therefore, we propose an uncertainty-aware bot detection method to inform the confidence and use the uncertainty score to pick a high-confidence decision from multiple views of a social network under different environments. Specifically, our proposed BotUmc uses LLM to extract information from tweets. Then, we construct a graph based on the extracted information, the original user information, and the user relationship and generate multiple views of the graph by causal interference. Lastly, an uncertainty loss is used to force the model to quantify the uncertainty of results and select the result with low uncertainty in one view as the final decision. Extensive experiments show the superiority of our method.

cs.SI↗

arXiv2025

IGL-Bench: Establishing the Comprehensive Benchmark for Imbalanced Graph Learning

Deep graph learning has gained grand popularity over the past years due to its versatility and success in representing graph data across a wide range of domains. However, the pervasive issue of imbalanced graph data distributions, where certain parts exhibit disproportionally abundant data while others remain sparse, undermines the efficacy of conventional graph learning algorithms, leading to biased outcomes. To address this challenge, Imbalanced Graph Learning (IGL) has garnered substantial attention, enabling more balanced data distributions and better task performance. Despite the proliferation of IGL algorithms, the absence of consistent experimental protocols and fair performance comparisons pose a significant barrier to comprehending advancements in this field. To bridge this gap, we introduce IGL-Bench, a foundational comprehensive benchmark for imbalanced graph learning, embarking on 16 diverse graph datasets and 24 distinct IGL algorithms with uniform data processing and splitting strategies. Specifically, IGL-Bench systematically investigates state-of-the-art IGL algorithms in terms of effectiveness, robustness, and efficiency on node-level and graph-level tasks, with the scope of class-imbalance and topology-imbalance. Extensive experiments demonstrate the potential benefits of IGL algorithms on various imbalanced conditions, offering insights and opportunities in the IGL field. Further, we have developed an open-sourced and unified package to facilitate reproducible evaluation and inspire further innovative research, which is available at https://github.com/RingBDStack/IGL-Bench.

cs.LG↗

arXiv2025

ASGEA: Exploiting Logic Rules from Align-Subgraphs for Entity Alignment

Entity alignment (EA) aims to identify entities across different knowledge graphs that represent the same real-world objects. Recent embedding-based EA methods have achieved state-of-the-art performance in EA yet faced interpretability challenges as they purely rely on the embedding distance and neglect the logic rules behind a pair of aligned entities. In this paper, we propose the Align-Subgraph Entity Alignment (ASGEA) framework to exploit logic rules from Align-Subgraphs. ASGEA uses anchor links as bridges to construct Align-Subgraphs and spreads along the paths across KGs, which distinguishes it from the embedding-based methods. Furthermore, we design an interpretable Path-based Graph Neural Network, ASGNN, to effectively identify and integrate the logic rules across KGs. We also introduce a node-level multi-modal attention mechanism coupled with multi-modal enriched anchors to augment the Align-Subgraph. Our experimental results demonstrate the superior performance of ASGEA over the existing embedding-based methods in both EA and Multi-Modal EA (MMEA) tasks.

cs.CL↗

arXiv2025

Dual Defense: Enhancing Privacy and Mitigating Poisoning Attacks in Federated Learning

Federated learning (FL) is inherently susceptible to privacy breaches and poisoning attacks. To tackle these challenges, researchers have separately devised secure aggregation mechanisms to protect data privacy and robust aggregation methods that withstand poisoning attacks. However, simultaneously addressing both concerns is challenging; secure aggregation facilitates poisoning attacks as most anomaly detection techniques require access to unencrypted local model updates, which are obscured by secure aggregation. Few recent efforts to simultaneously tackle both challenges offen depend on impractical assumption of non-colluding two-server setups that disrupt FL's topology, or three-party computation which introduces scalability issues, complicating deployment and application. To overcome this dilemma, this paper introduce a Dual Defense Federated learning (DDFed) framework. DDFed simultaneously boosts privacy protection and mitigates poisoning attacks, without introducing new participant roles or disrupting the existing FL topology. DDFed initially leverages cutting-edge fully homomorphic encryption (FHE) to securely aggregate model updates, without the impractical requirement for non-colluding two-server setups and ensures strong privacy protection. Additionally, we proposes a unique two-phase anomaly detection mechanism for encrypted model updates, featuring secure similarity computation and feedback-driven collaborative selection, with additional measures to prevent potential privacy breaches from Byzantine clients incorporated into the detection process. We conducted extensive experiments on various model poisoning attacks and FL scenarios, including both cross-device and cross-silo FL. Experiments on publicly available datasets demonstrate that DDFed successfully protects model privacy and effectively defends against model poisoning threats.

cs.CR↗

arXiv2025

Robust Graph Learning Against Adversarial Evasion Attacks via Prior-Free Diffusion-Based Structure Purification

Adversarial evasion attacks pose significant threats to graph learning, with lines of studies that have improved the robustness of Graph Neural Networks (GNNs). However, existing works rely on priors about clean graphs or attacking strategies, which are often heuristic and inconsistent. To achieve robust graph learning over different types of evasion attacks and diverse datasets, we investigate this problem from a prior-free structure purification perspective. Specifically, we propose a novel Diffusion-based Structure Purification framework named DiffSP, which creatively incorporates the graph diffusion model to learn intrinsic distributions of clean graphs and purify the perturbed structures by removing adversaries under the direction of the captured predictive patterns without relying on priors. DiffSP is divided into the forward diffusion process and the reverse denoising process, during which structure purification is achieved. To avoid valuable information loss during the forward process, we propose an LID-driven nonisotropic diffusion mechanism to selectively inject noise anisotropically. To promote semantic alignment between the clean graph and the purified graph generated during the reverse process, we reduce the generation uncertainty by the proposed graph transfer entropy guided denoising mechanism. Extensive experiments demonstrate the superior robustness of DiffSP against evasion attacks.

cs.LG↗

arXiv2025

PINNsAgent: Automated PDE Surrogation with Large Language Models

Solving partial differential equations (PDEs) using neural methods has been a long-standing scientific and engineering research pursuit. Physics-Informed Neural Networks (PINNs) have emerged as a promising alternative to traditional numerical methods for solving PDEs. However, the gap between domain-specific knowledge and deep learning expertise often limits the practical application of PINNs. Previous works typically involve manually conducting extensive PINNs experiments and summarizing heuristic rules for hyperparameter tuning. In this work, we introduce PINNsAgent, a novel surrogation framework that leverages large language models (LLMs) and utilizes PINNs as a foundation to bridge the gap between domain-specific knowledge and deep learning. Specifically, PINNsAgent integrates (1) Physics-Guided Knowledge Replay (PGKR), which encodes the essential characteristics of PDEs and their associated best-performing PINNs configurations into a structured format, enabling efficient knowledge transfer from solved PDEs to similar problems and (2) Memory Tree Reasoning, a strategy that effectively explores the search space for optimal PINNs architectures. By leveraging LLMs and exploration strategies, PINNsAgent enhances the automation and efficiency of PINNs-based solutions. We evaluate PINNsAgent on 14 benchmark PDEs, demonstrating its effectiveness in automating the surrogation process and significantly improving the accuracy of PINNs-based solutions.

cs.CE↗

arXiv2025

TAPFed: Threshold Secure Aggregation for Privacy-Preserving Federated Learning

Federated learning is a computing paradigm that enhances privacy by enabling multiple parties to collaboratively train a machine learning model without revealing personal data. However, current research indicates that traditional federated learning platforms are unable to ensure privacy due to privacy leaks caused by the interchange of gradients. To achieve privacy-preserving federated learning, integrating secure aggregation mechanisms is essential. Unfortunately, existing solutions are vulnerable to recently demonstrated inference attacks such as the disaggregation attack. This paper proposes TAPFed, an approach for achieving privacy-preserving federated learning in the context of multiple decentralized aggregators with malicious actors. TAPFed uses a proposed threshold functional encryption scheme and allows for a certain number of malicious aggregators while maintaining security and privacy. We provide formal security and privacy analyses of TAPFed and compare it to various baselines through experimental evaluation. Our results show that TAPFed offers equivalent performance in terms of model quality compared to state-of-the-art approaches while reducing transmission overhead by 29%-45% across different model training scenarios. Most importantly, TAPFed can defend against recently demonstrated inference attacks caused by curious aggregators, which the majority of existing approaches are susceptible to.

cs.CR↗

arXiv2024

Discrete Curvature Graph Information Bottleneck

Graph neural networks(GNNs) have been demonstrated to depend on whether the node effective information is sufficiently passing. Discrete curvature (Ricci curvature) is used to study graph connectivity and information propagation efficiency with a geometric perspective, and has been raised in recent years to explore the efficient message-passing structure of GNNs. However, most empirical studies are based on directly observed graph structures or heuristic topological assumptions and lack in-depth exploration of underlying optimal information transport structures for downstream tasks. We suggest that graph curvature optimization is more in-depth and essential than directly rewiring or learning for graph structure with richer message-passing characterization and better information transport interpretability. From both graph geometry and information theory perspectives, we propose the novel Discrete Curvature Graph Information Bottleneck (CurvGIB) framework to optimize the information transport structure and learn better node representations simultaneously. CurvGIB advances the Variational Information Bottleneck (VIB) principle for Ricci curvature optimization to learn the optimal information transport pattern for specific downstream tasks. The learned Ricci curvature is used to refine the optimal transport structure of the graph, and the node representation is fully and efficiently learned. Moreover, for the computational complexity of Ricci curvature differentiation, we combine Ricci flow and VIB to deduce a curvature optimization approximation to form a tractable IB objective function. Extensive experiments on various datasets demonstrate the superior effectiveness and interpretability of CurvGIB.

cs.LG↗

arXiv2024

Graph Size-imbalanced Learning with Energy-guided Structural Smoothing

Graph is a prevalent data structure employed to represent the relationships between entities, frequently serving as a tool to depict and simulate numerous systems, such as molecules and social networks. However, real-world graphs usually suffer from the size-imbalanced problem in the multi-graph classification, i.e., a long-tailed distribution with respect to the number of nodes. Recent studies find that off-the-shelf Graph Neural Networks (GNNs) would compromise model performance under the long-tailed settings. We investigate this phenomenon and discover that the long-tailed graph distribution greatly exacerbates the discrepancies in structural features. To alleviate this problem, we propose a novel energy-based size-imbalanced learning framework named \textbf{SIMBA}, which smooths the features between head and tail graphs and re-weights them based on the energy propagation. Specifically, we construct a higher-level graph abstraction named \textit{Graphs-to-Graph} according to the correlations between graphs to link independent graphs and smooths the structural discrepancies. We further devise an energy-based message-passing belief propagation method for re-weighting lower compatible graphs in the training process and further smooth local feature discrepancies. Extensive experimental results over five public size-imbalanced datasets demonstrate the superior effectiveness of the model for size-imbalanced graph classification tasks.

cs.LG↗

arXiv2024

DG-Mamba: Robust and Efficient Dynamic Graph Structure Learning with Selective State Space Models

Dynamic graphs exhibit intertwined spatio-temporal evolutionary patterns, widely existing in the real world. Nevertheless, the structure incompleteness, noise, and redundancy result in poor robustness for Dynamic Graph Neural Networks (DGNNs). Dynamic Graph Structure Learning (DGSL) offers a promising way to optimize graph structures. However, aside from encountering unacceptable quadratic complexity, it overly relies on heuristic priors, making it hard to discover underlying predictive patterns. How to efficiently refine the dynamic structures, capture intrinsic dependencies, and learn robust representations, remains under-explored. In this work, we propose the novel DG-Mamba, a robust and efficient Dynamic Graph structure learning framework with the Selective State Space Models (Mamba). To accelerate the spatio-temporal structure learning, we propose a kernelized dynamic message-passing operator that reduces the quadratic time complexity to linear. To capture global intrinsic dynamics, we establish the dynamic graph as a self-contained system with State Space Model. By discretizing the system states with the cross-snapshot graph adjacency, we enable the long-distance dependencies capturing with the selective snapshot scan. To endow learned dynamic structures more expressive with informativeness, we propose the self-supervised Principle of Relevant Information for DGSL to regularize the most relevant yet least redundant information, enhancing global robustness. Extensive experiments demonstrate the superiority of the robustness and efficiency of our DG-Mamba compared with the state-of-the-art baselines against adversarial attacks.

cs.LG↗

arXiv2024

KnowFormer: Revisiting Transformers for Knowledge Graph Reasoning

Knowledge graph reasoning plays a vital role in various applications and has garnered considerable attention. Recently, path-based methods have achieved impressive performance. However, they may face limitations stemming from constraints in message-passing neural networks, such as missing paths and information over-squashing. In this paper, we revisit the application of transformers for knowledge graph reasoning to address the constraints faced by path-based methods and propose a novel method KnowFormer. KnowFormer utilizes a transformer architecture to perform reasoning on knowledge graphs from the message-passing perspective, rather than reasoning by textual information like previous pretrained language model based methods. Specifically, we define the attention computation based on the query prototype of knowledge graph reasoning, facilitating convenient construction and efficient optimization. To incorporate structural information into the self-attention mechanism, we introduce structure-aware modules to calculate query, key, and value respectively. Additionally, we present an efficient attention computation method for better scalability. Experimental results demonstrate the superior performance of KnowFormer compared to prominent baseline methods on both transductive and inductive benchmarks.

cs.AI↗