OpenRaiser/Intern-Atlas huggingface dataset:
Generalizability of Neural Networks Minimizing Empirical Risk Based on Expressive Ability
Venue: arXiv cs.LG 2025
Year: 2025

The primary objective of learning methods is generalization. Classic uniform generalization bounds, which rely on VC-dimension or Rademacher complexity, fail to explain the significant attribute that over-parameterized models in deep learning exhibit nice generalizability. On the other hand, algorithm-dependent generalization bounds, like stability bounds, often rely on strict assumptions. To establish generalizability under less stringent assumptions, this paper investigates the generalizability of neural networks that minimize or approximately minimize empirical risk. We establish a lower bound for population accuracy based on the expressiveness of these networks, which indicates that with an adequate large number of training samples and network sizes, these networks, including over-parameterized ones, can generalize effectively. Additionally, we provide a necessary condition for generalization, demonstrating that, for certain data distributions, the quantity of training data required to ensure generalization exceeds the network size needed to represent the corresponding data distribution. Finally, we provide theoretical insights into several phenomena in deep learning, including robust generalization, importance of over-parameterization, and effect of loss function on generalization.
Artificial Intelligence in Pronunciation Teaching: Use and Beliefs of Foreign Language Teachers
Venue: arXiv cs.AI 2025
Year: 2025

Pronunciation instruction in foreign language classrooms has often been an overlooked area of focus. With the widespread adoption of Artificial Intelligence (AI) and its potential benefits, investigating how AI is utilized in pronunciation teaching and understanding the beliefs of teachers about this tool is essential for improving learning outcomes. This study aims to examine how AI use for pronunciation instruction varies across different demographic and professional factors among teachers, and how these factors, including AI use, influence the beliefs of teachers about AI. The study involved 117 English as a Foreign Language (EFL) in-service teachers working in Cyprus, who completed an online survey designed to assess their beliefs about the effectiveness of AI, its drawbacks, and their willingness to integrate AI into their teaching practices. The results revealed that teachers were significantly more likely to agree on the perceived effectiveness of AI and their willingness to adopt it, compared to their concerns about its use. Furthermore, teachers working in higher education and adult education, as well as those who had received more extensive training, reported using AI more frequently in their teaching. Teachers who utilized AI more often expressed stronger agreement with its effectiveness, while those who had received more training were less likely to express concerns about its integration. Given the limited training that many teachers currently receive, these findings demonstrate the need for tailored training sessions that address the specific needs and concerns of educators, ultimately fostering the adoption of AI in pronunciation instruction.
Biological Sequence with Language Model Prompting: A Survey
Venue: arXiv cs.CL 2025
Year: 2025

Large Language models (LLMs) have emerged as powerful tools for addressing challenges across diverse domains. Notably, recent studies have demonstrated that large language models significantly enhance the efficiency of biomolecular analysis and synthesis, attracting widespread attention from academics and medicine. In this paper, we systematically investigate the application of prompt-based methods with LLMs to biological sequences, including DNA, RNA, proteins, and drug discovery tasks. Specifically, we focus on how prompt engineering enables LLMs to tackle domain-specific problems, such as promoter sequence prediction, protein structure modeling, and drug-target binding affinity prediction, often with limited labeled data. Furthermore, our discussion highlights the transformative potential of prompting in bioinformatics while addressing key challenges such as data scarcity, multimodal fusion, and computational resource limitations. Our aim is for this paper to function both as a foundational primer for newcomers and a catalyst for continued innovation within this dynamic field of study.
VLA Model-Expert Collaboration for Bi-directional Manipulation Learning
Venue: arXiv cs.RO 2025
Year: 2025

The emergence of vision-language-action (VLA) models has given rise to foundation models for robot manipulation. Although these models have achieved significant improvements, their generalization in multi-task manipulation remains limited. This study proposes a VLA model-expert collaboration framework that leverages a limited number of expert actions to enhance VLA model performance. This approach reduces expert workload relative to manual operation while simultaneously improving the reliability and generalization of VLA models. Furthermore, manipulation data collected during collaboration can further refine the VLA model, while human participants concurrently enhance their skills. This bi-directional learning loop boosts the overall performance of the collaboration system. Experimental results across various VLA models demonstrate the effectiveness of the proposed system in collaborative manipulation and learning, as evidenced by improved success rates across tasks. Additionally, validation using a brain-computer interface (BCI) indicates that the collaboration system enhances the efficiency of low-speed action systems by involving VLA model during manipulation. These promising results pave the way for advancing human-robot interaction in the era of foundation models for robotics. (Project website: https://aoqunjin.github.io/Expert-VLA/)
Towards Intelligent Transportation with Pedestrians and Vehicles In-the-Loop: A Surveillance Video-Assisted Federated Digital Twin Framework
Venue: arXiv cs.ET 2025
Year: 2025

In intelligent transportation systems (ITSs), incorporating pedestrians and vehicles in-the-loop is crucial for developing realistic and safe traffic management solutions. However, there is falls short of simulating complex real-world ITS scenarios, primarily due to the lack of a digital twin implementation framework for characterizing interactions between pedestrians and vehicles at different locations in different traffic environments. In this article, we propose a surveillance video assisted federated digital twin (SV-FDT) framework to empower ITSs with pedestrians and vehicles in-the-loop. Specifically, SVFDT builds comprehensive pedestrian-vehicle interaction models by leveraging multi-source traffic surveillance videos. Its architecture consists of three layers: (i) the end layer, which collects traffic surveillance videos from multiple sources; (ii) the edge layer, responsible for semantic segmentation-based visual understanding, twin agent-based interaction modeling, and local digital twin system (LDTS) creation in local regions; and (iii) the cloud layer, which integrates LDTSs across different regions to construct a global DT model in realtime. We analyze key design requirements and challenges and present core guidelines for SVFDT's system implementation. A testbed evaluation demonstrates its effectiveness in optimizing traffic management. Comparisons with traditional terminal-server frameworks highlight SV-FDT's advantages in mirroring delays, recognition accuracy, and subjective evaluation. Finally, we identify some open challenges and discuss future research directions.
Conformal forecasting for surgical instrument trajectory
Venue: arXiv cs.CV 2025
Year: 2025

Forecasting surgical instrument trajectories and predicting the next surgical action recently started to attract attention from the research community. Both these tasks are crucial for automation and assistance in endoscopy surgery. Given the safety-critical nature of these tasks, reliable uncertainty quantification is essential. Conformal prediction is a fast-growing and widely recognized framework for uncertainty estimation in machine learning and computer vision, offering distribution-free, theoretically valid prediction intervals. In this work, we explore the application of standard conformal prediction and conformalized quantile regression to estimate uncertainty in forecasting surgical instrument motion, i.e., predicting direction and magnitude of surgical instruments' future motion. We analyze and compare their coverage and interval sizes, assessing the impact of multiple hypothesis testing and correction methods. Additionally, we show how these techniques can be employed to produce useful uncertainty heatmaps. To the best of our knowledge, this is the first study applying conformal prediction to surgical guidance, marking an initial step toward constructing principled prediction intervals with formal coverage guarantees in this domain.
Interference in OFDM Systems and Networks
Venue: arXiv cs.IT 2025
Year: 2025

In this paper we present an overview of various kinds of interference, that arise in the Orthogonal Frequency-Domain Multiplexing (OFDM)-based digital communications systems at the physical layer. Inter-symbol, inter-block, inter-carrier interference types are described in detail, valid for any OFDM transmission, along with Inter-cell interference specific to cellular networks. A survey of various communication disruptions techniques is presented - primarily focusing on intentional interference - jamming. Furthermore, we present a survey of modulation techniques that expand on the OFDM and may be considered viable candidates for modulation in the future 6G cellular networks.
RCRank: Multimodal Ranking of Root Causes of Slow Queries in Cloud Database Systems
Venue: arXiv cs.DB 2025
Year: 2025

With the continued migration of storage to cloud database systems,the impact of slow queries in such systems on services and user experience is increasing. Root-cause diagnosis plays an indispensable role in facilitating slow-query detection and revision. This paper proposes a method capable of both identifying possible root cause types for slow queries and ranking these according to their potential for accelerating slow queries. This enables prioritizing root causes with the highest impact, in turn improving slow-query revision effectiveness. To enable more accurate and detailed diagnoses, we propose the multimodal Ranking for the Root Causes of slow queries (RCRank) framework, which formulates root cause analysis as a multimodal machine learning problem and leverages multimodal information from query statements, execution plans, execution logs, and key performance indicators. To obtain expressive embeddings from its heterogeneous multimodal input, RCRank integrates self-supervised pre-training that enhances cross-modal alignment and task relevance. Next, the framework integrates root-cause-adaptive cross Transformers that enable adaptive fusion of multimodal features with varying characteristics. Finally, the framework offers a unified model that features an impact-aware training objective for identifying and ranking root causes. We report on experiments on real and synthetic datasets, finding that RCRank is capable of consistently outperforming the state-of-the-art methods at root cause identification and ranking according to a range of metrics.
Knowledge Retention for Continual Model-Based Reinforcement Learning
Venue: arXiv cs.LG 2025
Year: 2025

We propose DRAGO, a novel approach for continual model-based reinforcement learning aimed at improving the incremental development of world models across a sequence of tasks that differ in their reward functions but not the state space or dynamics. DRAGO comprises two key components: Synthetic Experience Rehearsal, which leverages generative models to create synthetic experiences from past tasks, allowing the agent to reinforce previously learned dynamics without storing data, and Regaining Memories Through Exploration, which introduces an intrinsic reward mechanism to guide the agent toward revisiting relevant states from prior tasks. Together, these components enable the agent to maintain a comprehensive and continually developing world model, facilitating more effective learning and adaptation across diverse environments. Empirical evaluations demonstrate that DRAGO is able to preserve knowledge across tasks, achieving superior performance in various continual learning scenarios.
Explainable AI in Time-Sensitive Scenarios: Prefetched Offline Explanation Model
Venue: arXiv cs.LG 2025
Year: 2025

As predictive machine learning models become increasingly adopted and advanced, their role has evolved from merely predicting outcomes to actively shaping them. This evolution has underscored the importance of Trustworthy AI, highlighting the necessity to extend our focus beyond mere accuracy and toward a comprehensive understanding of these models' behaviors within the specific contexts of their applications. To further progress in explainability, we introduce Poem, Prefetched Offline Explanation Model, a model-agnostic, local explainability algorithm for image data. The algorithm generates exemplars, counterexemplars and saliency maps to provide quick and effective explanations suitable for time-sensitive scenarios. Leveraging an existing local algorithm, \poem{} infers factual and counterfactual rules from data to create illustrative examples and opposite scenarios with an enhanced stability by design. A novel mechanism then matches incoming test points with an explanation base and produces diverse exemplars, informative saliency maps and believable counterexemplars. Experimental results indicate that Poem outperforms its predecessor Abele in speed and ability to generate more nuanced and varied exemplars alongside more insightful saliency maps and valuable counterexemplars.
Solving Word-Sense Disambiguation and Word-Sense Induction with Dictionary Examples
Venue: arXiv cs.CL 2025
Year: 2025

Many less-resourced languages struggle with a lack of large, task-specific datasets that are required for solving relevant tasks with modern transformer-based large language models (LLMs). On the other hand, many linguistic resources, such as dictionaries, are rarely used in this context despite their large information contents. We show how LLMs can be used to extend existing language resources in less-resourced languages for two important tasks: word-sense disambiguation (WSD) and word-sense induction (WSI). We approach the two tasks through the related but much more accessible word-in-context (WiC) task where, given a pair of sentences and a target word, a classification model is tasked with predicting whether the sense of a given word differs between sentences. We demonstrate that a well-trained model for this task can distinguish between different word senses and can be adapted to solve the WSD and WSI tasks. The advantage of using the WiC task, instead of directly predicting senses, is that the WiC task does not need pre-constructed sense inventories with a sufficient number of examples for each sense, which are rarely available in less-resourced languages. We show that sentence pairs for the WiC task can be successfully generated from dictionary examples using LLMs. The resulting prediction models outperform existing models on WiC, WSD, and WSI tasks. We demonstrate our methodology on the Slovene language, where a monolingual dictionary is available, but word-sense resources are tiny.
Layer-Specific Scaling of Positional Encodings for Superior Long-Context Modeling
Venue: arXiv cs.CL 2025
Year: 2025

Although large language models (LLMs) have achieved significant progress in handling long-context inputs, they still suffer from the ``lost-in-the-middle'' problem, where crucial information in the middle of the context is often underrepresented or lost. Our extensive experiments reveal that this issue may arise from the rapid long-term decay in Rotary Position Embedding (RoPE). To address this problem, we propose a layer-specific positional encoding scaling method that assigns distinct scaling factors to each layer, slowing down the decay rate caused by RoPE to make the model pay more attention to the middle context. A specially designed genetic algorithm is employed to efficiently select the optimal scaling factors for each layer by incorporating Bezier curves to reduce the search space. Through comprehensive experimentation, we demonstrate that our method significantly alleviates the ``lost-in-the-middle'' problem. Our approach results in an average accuracy improvement of up to 20% on the Key-Value Retrieval dataset. Furthermore, we show that layer-specific interpolation, as opposed to uniform interpolation across all layers, enhances the model's extrapolation capabilities when combined with PI and Dynamic-NTK positional encoding schemes.
LONGCODEU: Benchmarking Long-Context Language Models on Long Code Understanding
Venue: arXiv cs.SE 2025
Year: 2025

Current advanced long-context language models offer great potential for real-world software engineering applications. However, progress in this critical domain remains hampered by a fundamental limitation: the absence of a rigorous evaluation framework for long code understanding. To gap this obstacle, we propose a long code understanding benchmark LONGCODEU from four aspects (8 tasks) to evaluate LCLMs' long code understanding ability required for practical applications, including code unit perception, intra-code unit understanding, inter-code unit relation understanding, and long code documentation understanding. We evaluate 9 popular LCLMs on LONGCODEU (i.e., 6 general models and 3 code models). Our experimental results reveal key limitations in current LCLMs' capabilities for long code understanding. Particularly, the performance of LCLMs drops dramatically when the long code length is greater than 32K, falling far short of their claimed 128K-1M context windows. In the four aspects, inter-code unit relation understanding is the most challenging for LCLMs. Our study provides valuable insights for optimizing LCLMs and driving advancements in software engineering.
Exploring the Multilingual NLG Evaluation Abilities of LLM-Based Evaluators
Venue: arXiv cs.CL 2025
Year: 2025

Previous research has shown that LLMs have potential in multilingual NLG evaluation tasks. However, existing research has not fully explored the differences in the evaluation capabilities of LLMs across different languages. To this end, this study provides a comprehensive analysis of the multilingual evaluation performance of 10 recent LLMs, spanning high-resource and low-resource languages through correlation analysis, perturbation attacks, and fine-tuning. We found that 1) excluding the reference answer from the prompt and using large-parameter LLM-based evaluators leads to better performance across various languages; 2) most LLM-based evaluators show a higher correlation with human judgments in high-resource languages than in low-resource languages; 3) in the languages where they are most sensitive to such attacks, they also tend to exhibit the highest correlation with human judgments; and 4) fine-tuning with data from a particular language yields a broadly consistent enhancement in the model's evaluation performance across diverse languages. Our findings highlight the imbalance in LLMs'evaluation capabilities across different languages and suggest that low-resource language scenarios deserve more attention.
Pydrofoil: accelerating Sail-based instruction set simulators
Venue: arXiv cs.PL 2025
Year: 2025

We present Pydrofoil, a multi-stage compiler that generates instruction set simulators (ISSs) from processor instruction set architectures (ISAs) expressed in the high-level, verification-oriented ISA specification language Sail. Pydrofoil shows a > 230x speedup over the C-based ISS generated by Sail on our benchmarks, and is based on the following insights. (i) An ISS is effectively an interpreter loop, and tracing just-in-time (JIT) compilers have proven effective at accelerating those, albeit mostly for dynamically typed languages. (ii) ISS workloads are highly atypical, dominated by intensive bit manipulation operations. Conventional compiler optimisations for general-purpose programming languages have limited impact for speeding up such workloads. We develop suitable domain-specific optimisations. (iii) Neither tracing JIT compilers, nor ahead-of-time (AOT) compilation alone, even with domain-specific optimisations, suffice for the generation of performant ISSs. Pydrofoil therefore implements a hybrid approach, pairing an AOT compiler with a tracing JIT built on the meta-tracing PyPy framework. AOT and JIT use domain-specific optimisations. Our benchmarks demonstrate that combining AOT and JIT compilers provides significantly greater performance gains than using either compiler alone.
AgentSafe: Safeguarding Large Language Model-based Multi-agent Systems via Hierarchical Data Management
Venue: arXiv cs.AI 2025
Year: 2025

Large Language Model based multi-agent systems are revolutionizing autonomous communication and collaboration, yet they remain vulnerable to security threats like unauthorized access and data breaches. To address this, we introduce AgentSafe, a novel framework that enhances MAS security through hierarchical information management and memory protection. AgentSafe classifies information by security levels, restricting sensitive data access to authorized agents. AgentSafe incorporates two components: ThreatSieve, which secures communication by verifying information authority and preventing impersonation, and HierarCache, an adaptive memory management system that defends against unauthorized access and malicious poisoning, representing the first systematic defense for agent memory. Experiments across various LLMs show that AgentSafe significantly boosts system resilience, achieving defense success rates above 80% under adversarial conditions. Additionally, AgentSafe demonstrates scalability, maintaining robust performance as agent numbers and information complexity grow. Results underscore effectiveness of AgentSafe in securing MAS and its potential for real-world application.
Can Large Language Models Predict Antimicrobial Resistance Gene?
Venue: arXiv cs.CL 2025
Year: 2025

This study demonstrates that generative large language models can be utilized in a more flexible manner for DNA sequence analysis and classification tasks compared to traditional transformer encoder-based models. While recent encoder-based models such as DNABERT and Nucleotide Transformer have shown significant performance in DNA sequence classification, transformer decoder-based generative models have not yet been extensively explored in this field. This study evaluates how effectively generative Large Language Models handle DNA sequences with various labels and analyzes performance changes when additional textual information is provided. Experiments were conducted on antimicrobial resistance genes, and the results show that generative Large Language Models can offer comparable or potentially better predictions, demonstrating flexibility and accuracy when incorporating both sequence and textual information. The code and data used in this work are available at the following GitHub repository: https://github.com/biocomgit/llm4dna.