OpenRaiser/Intern-Atlas huggingface dataset:
End-to-end Sequence Labeling via Bi-directional LSTM-CNNs-CRF: A Reproducibility Study
Venue: arXiv cs.CL 2025
Year: 2025

We present a reproducibility study of the state-of-the-art neural architecture for sequence labeling proposed by Ma and Hovy (2016)\cite{ma2016end}. The original BiLSTM-CNN-CRF model combines character-level representations via Convolutional Neural Networks (CNNs), word-level context modeling through Bi-directional Long Short-Term Memory networks (BiLSTMs), and structured prediction using Conditional Random Fields (CRFs). This end-to-end approach eliminates the need for hand-crafted features while achieving excellent performance on named entity recognition (NER) and part-of-speech (POS) tagging tasks. Our implementation successfully reproduces the key results, achieving 91.18\% F1-score on CoNLL-2003 NER and demonstrating the model's effectiveness across sequence labeling tasks. We provide a detailed analysis of the architecture components and release an open-source PyTorch implementation to facilitate further research.
Interpretable Machine Learning for Cognitive Aging: Handling Missing Data and Uncovering Social Determinant
Venue: arXiv cs.LG 2025
Year: 2025

Early detection of Alzheimer's disease (AD) is crucial because its neurodegenerative effects are irreversible, and neuropathologic and social-behavioral risk factors accumulate years before diagnosis. Identifying higher-risk individuals earlier enables prevention, timely care, and equitable resource allocation. We predict cognitive performance from social determinants of health (SDOH) using the NIH NIA-supported PREPARE Challenge Phase 2 dataset derived from the nationally representative Mex-Cog cohort of the 2003 and 2012 Mexican Health and Aging Study (MHAS). Data: The target is a validated composite cognitive score across seven domains-orientation, memory, attention, language, constructional praxis, and executive function-derived from the 2016 and 2021 MHAS waves. Predictors span demographic, socioeconomic, health, lifestyle, psychosocial, and healthcare access factors. Methodology: Missingness was addressed with a singular value decomposition (SVD)-based imputation pipeline treating continuous and categorical variables separately. This approach leverages latent feature correlations to recover missing values while balancing reliability and scalability. After evaluating multiple methods, XGBoost was chosen for its superior predictive performance. Results and Discussion: The framework outperformed existing methods and the data challenge leaderboard, demonstrating high accuracy, robustness, and interpretability. SHAP-based post hoc analysis identified top contributing SDOH factors and age-specific feature patterns. Notably, flooring material emerged as a strong predictor, reflecting socioeconomic and environmental disparities. Other influential factors, age, SES, lifestyle, social interaction, sleep, stress, and BMI, underscore the multifactorial nature of cognitive aging and the value of interpretable, data-driven SDOH modeling.
Game-Theoretic Risk-Shaped Reinforcement Learning for Safe Autonomous Driving
Venue: arXiv cs.RO 2025
Year: 2025

Ensuring safety in autonomous driving (AD) remains a significant challenge, especially in highly dynamic and complex traffic environments where diverse agents interact and unexpected hazards frequently emerge. Traditional reinforcement learning (RL) methods often struggle to balance safety, efficiency, and adaptability, as they primarily focus on reward maximization without explicitly modeling risk or safety constraints. To address these limitations, this study proposes a novel game-theoretic risk-shaped RL (GTR2L) framework for safe AD. GTR2L incorporates a multi-level game-theoretic world model that jointly predicts the interactive behaviors of surrounding vehicles and their associated risks, along with an adaptive rollout horizon that adjusts dynamically based on predictive uncertainty. Furthermore, an uncertainty-aware barrier mechanism enables flexible modulation of safety boundaries. A dedicated risk modeling approach is also proposed, explicitly capturing both epistemic and aleatoric uncertainty to guide constrained policy optimization and enhance decision-making in complex environments. Extensive evaluations across diverse and safety-critical traffic scenarios show that GTR2L significantly outperforms state-of-the-art baselines, including human drivers, in terms of success rate, collision and violation reduction, and driving efficiency. The code is available at https://github.com/DanielHu197/GTR2L.
Judge Before Answer: Can MLLM Discern the False Premise in Question?
Venue: arXiv cs.CL 2025
Year: 2025

Multimodal large language models (MLLMs) have witnessed astonishing advancements in recent years. Despite these successes, MLLMs remain vulnerable to flase premise problems. However, existing benchmarks targeting this issue are limited in scope: they often lack fine-grained categorization, exhibit insufficient coverage, and thus fail to provide a rigorous evaluation of the ability of models to recognize false premises. To bridge this gap, we introduce a fully automated pipeline for constructing a comprehensive benchmark of false premise questions. Our method systematically categorizes the premises into three main types and thirteen subtypes according to the abilities required to identify the premises, resulting in the JBA dataset.Results show current MLLMs still struggle with false premise recognition. Building upon this benchmark, we further propose a recognition enhancement framework tailored to strengthen the robustness of MLLMs to detect false premises. Extensive experiments demonstrate that models trained with our framework achieve significant improvements in false premise recognition.
RV-HATE: Reinforced Multi-Module Voting for Implicit Hate Speech Detection
Venue: arXiv cs.CL 2025
Year: 2025

Hate speech remains prevalent in human society and continues to evolve in its forms and expressions. Modern advancements in internet and online anonymity accelerate its rapid spread and complicate its detection. However, hate speech datasets exhibit diverse characteristics primarily because they are constructed from different sources and platforms, each reflecting different linguistic styles and social contexts. Despite this diversity, prior studies on hate speech detection often rely on fixed methodologies without adapting to data-specific features. We introduce RV-HATE, a detection framework designed to account for the dataset-specific characteristics of each hate speech dataset. RV-HATE consists of multiple specialized modules, where each module focuses on distinct linguistic or contextual features of hate speech. The framework employs reinforcement learning to optimize weights that determine the contribution of each module for a given dataset. A voting mechanism then aggregates the module outputs to produce the final decision. RV-HATE offers two primary advantages: (1)~it improves detection accuracy by tailoring the detection process to dataset-specific attributes, and (2)~it also provides interpretable insights into the distinctive features of each dataset. Consequently, our approach effectively addresses implicit hate speech and achieves superior performance compared to conventional static methods. Our code is available at https://github.com/leeyejin1231/RV-HATE.
Video-STR: Reinforcing MLLMs in Video Spatio-Temporal Reasoning with Relation Graph
Venue: arXiv cs.AI 2025
Year: 2025

Recent progress in Multimodal Large Language Models (MLLMs) has demonstrated strong semantic understanding capabilities, but struggles to perform precise spatio-temporal understanding. Existing spatio-temporal methods primarily focus on the video itself, while overlooking the physical information within the video, such as multi-object layouts and motion. Such limitations restrict the use of MLLMs in downstream applications that demand high precision, including embodied intelligence and VR. To address this issue, we present Video-STR, a novel graph-based reinforcement method for precise Video Spatio-Temporal Reasoning. Building upon the capacity of Reinforcement Learning with Verifiable Reward (RLVR) to improve model abilities, we introduce a reasoning mechanism using graph-based Group Relative Policy Optimization (GRPO) method to guide the model in inferring the underlying spatio-temporal topology of scenarios during the thinking process. To resolve the lack of spatio-temporal training data, we construct the STV-205k dataset with 205k question-answering pairs, covering dynamic multi-object scenes in both indoor and outdoor environments, to support the model training. Experiments show that Video-STR achieves state-of-the-art results on various benchmarks, outperforming the base model by 13% on STI-Bench, and demonstrating the effectiveness of our approach and dataset. Code, model, and data will be released.
A Survey on Agentic Multimodal Large Language Models
Venue: arXiv cs.CV 2025
Year: 2025

With the recent emergence of revolutionary autonomous agentic systems, research community is witnessing a significant shift from traditional static, passive, and domain-specific AI agents toward more dynamic, proactive, and generalizable agentic AI. Motivated by the growing interest in agentic AI and its potential trajectory toward AGI, we present a comprehensive survey on Agentic Multimodal Large Language Models (Agentic MLLMs). In this survey, we explore the emerging paradigm of agentic MLLMs, delineating their conceptual foundations and distinguishing characteristics from conventional MLLM-based agents. We establish a conceptual framework that organizes agentic MLLMs along three fundamental dimensions: (i) Agentic internal intelligence functions as the system's commander, enabling accurate long-horizon planning through reasoning, reflection, and memory; (ii) Agentic external tool invocation, whereby models proactively use various external tools to extend their problem-solving capabilities beyond their intrinsic knowledge; and (iii) Agentic environment interaction further situates models within virtual or physical environments, allowing them to take actions, adapt strategies, and sustain goal-directed behavior in dynamic real-world scenarios. To further accelerate research in this area for the community, we compile open-source training frameworks, training and evaluation datasets for developing agentic MLLMs. Finally, we review the downstream applications of agentic MLLMs and outline future research directions for this rapidly evolving field. To continuously track developments in this rapidly evolving field, we will also actively update a public repository at https://github.com/HJYao00/Awesome-Agentic-MLLMs.
Frequency Domain Unlocks New Perspectives for Abdominal Medical Image Segmentation
Venue: arXiv cs.CV 2025
Year: 2025

Accurate segmentation of tumors and adjacent normal tissues in medical images is essential for surgical planning and tumor staging. Although foundation models generally perform well in segmentation tasks, they often struggle to focus on foreground areas in complex, low-contrast backgrounds, where some malignant tumors closely resemble normal organs, complicating contextual differentiation. To address these challenges, we propose the Foreground-Aware Spectrum Segmentation (FASS) framework. First, we introduce a foreground-aware module to amplify the distinction between background and the entire volume space, allowing the model to concentrate more effectively on target areas. Next, a feature-level frequency enhancement module, based on wavelet transform, extracts discriminative high-frequency features to enhance boundary recognition and detail perception. Eventually, we introduce an edge constraint module to preserve geometric continuity in segmentation boundaries. Extensive experiments on multiple medical datasets demonstrate superior performance across all metrics, validating the effectiveness of our framework, particularly in robustness under complex conditions and fine structure recognition. Our framework significantly enhances segmentation of low-contrast images, paving the way for applications in more diverse and complex medical imaging scenarios.
Abstract String Domain Defined with Word Equations as a Reduced Product (Extended Version)
Venue: arXiv cs.PL 2025
Year: 2025

We introduce a string-interval abstract domain, where string intervals are characterized by systems of word equations (encoding lower bounds on string values) and word disequalities (encoding upper bounds). Building upon the lattice structure of string intervals, we define an abstract string object as a reduced product on a string property semilattice, determined by length-non-increasing morphisms. We consider several reduction strategies for abstract string objects and show that upon these strategies the string object domain forms a lattice. We define basic abstract string operations on the domain, aiming to minimize computational overheads on the reduction, and show how the domain can be used to analyse properties of JavaScript string manipulating programs.
RepoSummary: Feature-Oriented Summarization and Documentation Generation for Code Repositories
Venue: arXiv cs.SE 2025
Year: 2025

Repository summarization is a crucial research question in development and maintenance for software engineering. Existing repository summarization techniques primarily focus on summarizing code according to the directory tree, which is insufficient for tracing high-level features to the methods that collaboratively implement them. To address these limitations, we propose RepoSummary, a feature-oriented code repository summarization approach that simultaneously generates repository documentation automatically. Furthermore, it establishes more accurate traceability links from functional features to the corresponding code elements, enabling developers to rapidly locate relevant methods and files during code comprehension and maintenance. Comprehensive experiments against the state-of-the-art baseline (HGEN) demonstrate that RepoSummary achieves higher feature coverage and more accurate traceability. On average, it increases the rate of completely covered features in manual documentation from 61.2% to 71.1%, improves file-level traceability recall from 29.9% to 53.0%, and generates documentation that is more conceptually consistent, easier to understand, and better formatted than that produced by existing approaches.
Robust Photoplethysmography Signal Denoising via Mamba Networks
Venue: arXiv cs.LG 2025
Year: 2025

Photoplethysmography (PPG) is widely used in wearable health monitoring, but its reliability is often degraded by noise and motion artifacts, limiting downstream applications such as heart rate (HR) estimation. This paper presents a deep learning framework for PPG denoising with an emphasis on preserving physiological information. In this framework, we propose DPNet, a Mamba-based denoising backbone designed for effective temporal modeling. To further enhance denoising performance, the framework also incorporates a scale-invariant signal-to-distortion ratio (SI-SDR) loss to promote waveform fidelity and an auxiliary HR predictor (HRP) that provides physiological consistency through HR-based supervision. Experiments on the BIDMC dataset show that our method achieves strong robustness against both synthetic noise and real-world motion artifacts, outperforming conventional filtering and existing neural models. Our method can effectively restore PPG signals while maintaining HR accuracy, highlighting the complementary roles of SI-SDR loss and HR-guided supervision. These results demonstrate the potential of our approach for practical deployment in wearable healthcare systems.
CoDefend: Cross-Modal Collaborative Defense via Diffusion Purification and Prompt Optimization
Venue: arXiv cs.CV 2025
Year: 2025

Multimodal Large Language Models (MLLMs) have achieved remarkable success in tasks such as image captioning, visual question answering, and cross-modal reasoning by integrating visual and textual modalities. However, their multimodal nature also exposes them to adversarial threats, where attackers can perturb either modality or both jointly to induce harmful, misleading, or policy violating outputs. Existing defense strategies, such as adversarial training and input purification, face notable limitations: adversarial training typically improves robustness only against known attacks while incurring high computational costs, whereas conventional purification approaches often suffer from degraded image quality and insufficient generalization to complex multimodal tasks. In this work, we focus on defending the visual modality, which frequently serves as the primary entry point for adversarial manipulation. We propose a supervised diffusion based denoising framework that leverages paired adversarial clean image datasets to fine-tune diffusion models with directional, task specific guidance. Unlike prior unsupervised purification methods such as DiffPure, our approach achieves higher quality reconstructions while significantly improving defense robustness in multimodal tasks. Furthermore, we incorporate prompt optimization as a complementary defense mechanism, enhancing resistance against diverse and unseen attack strategies. Extensive experiments on image captioning and visual question answering demonstrate that our method not only substantially improves robustness but also exhibits strong transferability to unknown adversarial attacks. These results highlight the effectiveness of supervised diffusion based denoising for multimodal defense, paving the way for more reliable and secure deployment of MLLMs in real world applications.
PhysioME: A Robust Multimodal Self-Supervised Framework for Physiological Signals with Missing Modalities
Venue: arXiv cs.LG 2025
Year: 2025

Missing or corrupted modalities are common in physiological signal-based medical applications owing to hardware constraints or motion artifacts. However, most existing methods assume the availability of all modalities, resulting in substantial performance degradation in the absence of any modality. To overcome this limitation, this study proposes PhysioME, a robust framework designed to ensure reliable performance under missing modality conditions. PhysioME adopts: (1) a multimodal self-supervised learning approach that combines contrastive learning with masked prediction; (2) a Dual-PathNeuroNet backbone tailored to capture the temporal dynamics of each physiological signal modality; and (3) a restoration decoder that reconstructs missing modality tokens, enabling flexible processing of incomplete inputs. The experimental results show that PhysioME achieves high consistency and generalization performance across various missing modality scenarios. These findings highlight the potential of PhysioME as a reliable tool for supporting clinical decision-making in real-world settings with imperfect data availability.
N-output Mechanism: Estimating Statistical Information from Numerical Data under Local Differential Privacy
Venue: arXiv cs.CR 2025
Year: 2025

Local Differential Privacy (LDP) addresses significant privacy concerns in sensitive data collection. In this work, we focus on numerical data collection under LDP, targeting a significant gap in the literature: existing LDP mechanisms are optimized for either a very small ($|Ω| \in \{2, 3\}$) or infinite output spaces. However, no generalized method for constructing an optimal mechanism for an arbitrary output size $N$ exists. To fill this gap, we propose the \textbf{N-output mechanism}, a generalized framework that maps numerical data to one of $N$ discrete outputs. We formulate the mechanism's design as an optimization problem to minimize estimation variance for any given $N \geq 2$ and develop both numerical and analytical solutions. This results in a mechanism that is highly accurate and adaptive, as its design is determined by solving an optimization problem for any chosen $N$. Furthermore, we extend our framework and existing mechanisms to the task of distribution estimation. Empirical evaluations show that the N-output mechanism achieves state-of-the-art accuracy for mean, variance, and distribution estimation with small communication costs.
Poseidon: A OneGraph Engine
Venue: arXiv cs.DB 2025
Year: 2025

We present the Poseidon engine behind the Neptune Analytics graph database service. Customers interact with Poseidon using the declarative openCypher query language, which enables requests that seamlessly combine traditional querying paradigms (such as graph pattern matching, variable length paths, aggregation) with algorithm invocations and has been syntactically extended to facilitate OneGraph interoperability, such as the disambiguation between globally unique IRIs (as exposed via RDF) vs. local identifiers (as encountered in LPG data). Poseidon supports a broad range of graph workloads, from simple transactions, to top-k beam search algorithms on dynamic graphs, to whole graph analytics requiring multiple full passes over the data. For example, real-time fraud detection, like many other use cases, needs to reflect current committed state of the dynamic graph. If a users cell phone is compromised, then all newer actions by that user become immediately suspect. To address such dynamic graph use cases, Poseidon combines state-of-the-art transaction processing with novel graph data indexing, including lock-free maintenance of adjacency lists, secondary succinct indices, partitioned heaps for data tuple storage with uniform placement, and innovative statistics for cost-based query optimization. The Poseidon engine uses a logical log for durability, enabling rapid evolution of in-memory data structures. Bulk data loads achieve more than 10 million property values per second on many data sets while simple transactions can execute in under 20ms against the storage engine.
Protein as a Second Language for LLMs
Venue: arXiv cs.LG 2025
Year: 2025

Deciphering the function of unseen protein sequences is a fundamental challenge with broad scientific impact, yet most existing methods depend on task-specific adapters or large-scale supervised fine-tuning. We introduce the "Protein-as-Second-Language" framework, which reformulates amino-acid sequences as sentences in a novel symbolic language that large language models can interpret through contextual exemplars. Our approach adaptively constructs sequence-question-answer triples that reveal functional cues in a zero-shot setting, without any further training. To support this process, we curate a bilingual corpus of 79,926 protein-QA instances spanning attribute prediction, descriptive understanding, and extended reasoning. Empirically, our method delivers consistent gains across diverse open-source LLMs and GPT-4, achieving up to 17.2% ROUGE-L improvement (average +7%) and even surpassing fine-tuned protein-specific language models. These results highlight that generic LLMs, when guided with protein-as-language cues, can outperform domain-specialized models, offering a scalable pathway for protein understanding in foundation models.