Daily Papers

Accurate prediction of RNA secondary structure underpins transcriptome annotation, mechanistic analysis of non-coding RNAs, and RNA therapeutic design. Recent gains from deep learning and RNA foundation models are difficult to interpret because current benchmarks may overestimate generalization across RNA families. We present the Comprehensive Hierarchical Annotation of Non-coding RNA Groups (CHANRG), a benchmark of 170{,}083 structurally non-redundant RNAs curated from more than 10 million sequences in Rfam~15.0 using structure-aware deduplication, genome-aware split design and multiscale structural evaluation. Across 29 predictors, foundation-model methods achieved the highest held-out accuracy but lost most of that advantage out of distribution, whereas structured decoders and direct neural predictors remained markedly more robust. This gap persisted after controlling for sequence length and reflected both loss of structural coverage and incorrect higher-order wiring. Together, CHANRG and a padding-free, symmetry-aware evaluation stack provide a stricter and batch-invariant framework for developing RNA structure predictors with demonstrable out-of-distribution robustness.

Large language models (LLMs) have been widely adopted across diverse software engineering domains, such as code generation, program repair, and vulnerability detection. These applications require understanding beyond surface-level code patterns: value propagation, control flow, and interdependence between program elements. However, existing benchmarks primarily evaluate end-to-end outcomes, such as whether code is correctly repaired or generated, leaving the models ability for program semantic reasoning underexplored. This work presents CoRe, a high-quality, human-verified benchmark designed to evaluate LLMs on fundamental static analysis tasks. CoRe includes 12,553 task instances spanning data dependency, control dependency, and information flow across programs written in C/C++, Java, and Python. To ensure semantic diversity and reasoning complexity, we propose a semantics-aware diverse sampling strategy that selects targets and task instances based on structural coverage and dependency depth. We evaluate 10 mainstream LLMs and show that, while they perform well at identifying dependencies, models still struggle with tasks that require deeper semantic understanding and multi-step reasoning. We further conduct qualitative analyses to uncover key challenges, such as complex control structures and backward dependency patterns, offering insights into improving LLMs code reasoning capabilities.

Visual Text Rendering (VTR) remains a critical challenge in text-to-image generation, where even advanced models frequently produce text with structural anomalies such as distortion, blurriness, and misalignment. However, we find that leading MLLMs and specialist OCR models largely fail to perceive these structural anomalies, creating a critical bottleneck for both VTR evaluation and RL-based optimization. As a result, even state-of-the-art generators (e.g., SeedDream4.0, Qwen-Image) still struggle to render structurally faithful text. To address this, we propose TextPecker, a plug-and-play structural anomaly perceptive RL strategy that mitigates noisy reward signals and works with any textto-image generator. To enable this capability, we construct a recognition dataset with character-level structural-anomaly annotations and develop a stroke-editing synthesis engine to expand structural-error coverage. Experiments show that TextPecker consistently improves diverse text-to-image models; even on the well-optimized Qwen-Image, it significantly yields average gains of 4% in structural fidelity and 8.7% in semantic alignment for Chinese text rendering, establishing a new state-of-the-art in high-fidelity VTR. Our work fills a gap in VTR optimization, providing a foundational step towards reliable and structural faithful visual text generation.

Memory is a critical component of robotic intelligence, as robots must rely on past observations and actions to accomplish long-horizon tasks in partially observable environments. However, existing robotic memory benchmarks still lack multimodal annotations for memory formation, provide limited task coverage and structural complexity, and remain restricted to simulation without real-world evaluation. We address this gap with RoboMemArena, a large-scale benchmark of 26 tasks, with average trajectory lengths exceeding 1,000 steps per task and 68.9% of subtasks being memory-dependent. The generation pipeline leverages a vision-language model (VLM) to design and compose subtasks, generates full trajectories through atomic functions, and provides memory-related annotations, including subtask instructions and native keyframe annotations, while paired real-world memory tasks support physical evaluation. We further design PrediMem, a dual-system VLA in which a high-level VLM planner manages a memory bank with recent and keyframe buffers and uses a predictive coding head to improve sensitivity to task dynamics. Extensive experiments on RoboMemArena show that PrediMem outperforms all baselines and provides insights into memory management, model architecture, and scaling laws for complex memory systems.

We introduce the MultiLang Code Parser Dataset (MLCPD), a large-scale, language-agnostic dataset unifying syntactic and structural representations of code across ten major programming languages. MLCPD contains over seven million parsed source files normalized under our proposed universal Abstract Syntax Tree (AST) schema, enabling consistent cross-language reasoning, structural learning, and multilingual software analysis. Unlike existing corpora that focus purely on token-level code or isolated parsers, MLCPD provides both hierarchical tree representations and rich metadata for every file, ensuring lossless syntactic coverage and structural uniformity. Each entry includes a normalized schema, language-level metadata, and abstracted node semantics stored in Parquet format for scalable retrieval. Empirical analyses reveal strong cross-language structural regularities-demonstrating that syntactic graphs from languages as diverse as Python, Java, and Go can be aligned under a shared schema. We release the dataset publicly on Hugging Face and the accompanying codebase on GitHub, which includes complete pipelines for dataset reproduction, grammar compilation, and a visualization tool for exploring the unified AST across languages. Together, these resources establish MLCPD as an open, reproducible foundation for future research in cross-language representation learning and program analysis.

This paper proposes Omni Dense Captioning, a novel task designed to generate continuous, fine-grained, and structured audio-visual narratives with explicit timestamps. To ensure dense semantic coverage, we introduce a six-dimensional structural schema to create "script-like" captions, enabling readers to vividly imagine the video content scene by scene, akin to a cinematographic screenplay. To facilitate research, we construct OmniDCBench, a high-quality, human-annotated benchmark, and propose SodaM, a unified metric that evaluates time-aware detailed descriptions while mitigating scene boundary ambiguity. Furthermore, we construct a training dataset, TimeChatCap-42K, and present TimeChat-Captioner-7B, a strong baseline trained via SFT and GRPO with task-specific rewards. Extensive experiments demonstrate that TimeChat-Captioner-7B achieves state-of-the-art performance, surpassing Gemini-2.5-Pro, while its generated dense descriptions significantly boost downstream capabilities in audio-visual reasoning (DailyOmni and WorldSense) and temporal grounding (Charades-STA). All datasets, models, and code will be made publicly available at https://github.com/yaolinli/TimeChat-Captioner.

LLM-based agents are rapidly being adopted across diverse domains. Since they interact with users without supervision, they must be tested extensively. Current testing approaches focus on acceptance-level evaluation from the user's perspective. While intuitive, these tests require manual evaluation, are difficult to automate, do not facilitate root cause analysis, and incur expensive test environments. In this paper, we present methods to enable structural testing of LLM-based agents. Our approach utilizes traces (based on OpenTelemetry) to capture agent trajectories, employs mocking to enforce reproducible LLM behavior, and adds assertions to automate test verification. This enables testing agent components and interactions at a deeper technical level within automated workflows. We demonstrate how structural testing enables the adaptation of software engineering best practices to agents, including the test automation pyramid, regression testing, test-driven development, and multi-language testing. In representative case studies, we demonstrate automated execution and faster root-cause analysis. Collectively, these methods reduce testing costs and improve agent quality through higher coverage, reusability, and earlier defect detection. We provide an open source reference implementation on GitHub.

In online reinforcement learning (RL), instead of employing standard structural assumptions on Markov decision processes (MDPs), using a certain coverage condition (original from offline RL) is enough to ensure sample-efficient guarantees (Xie et al. 2023). In this work, we focus on this new direction by digging more possible and general coverage conditions, and study the potential and the utility of them in efficient online RL. We identify more concepts, including the L^p variant of concentrability, the density ratio realizability, and trade-off on the partial/rest coverage condition, that can be also beneficial to sample-efficient online RL, achieving improved regret bound. Furthermore, if exploratory offline data are used, under our coverage conditions, both statistically and computationally efficient guarantees can be achieved for online RL. Besides, even though the MDP structure is given, e.g., linear MDP, we elucidate that, good coverage conditions are still beneficial to obtain faster regret bound beyond O(T) and even a logarithmic order regret. These results provide a good justification for the usage of general coverage conditions in efficient online RL.

Radio-frequency coverage maps (RF maps) are extensively utilized in wireless networks for capacity planning, placement of access points and base stations, localization, and coverage estimation. Conducting site surveys to obtain RF maps is labor-intensive and sometimes not feasible. In this paper, we propose radio-frequency adversarial deep-learning inference for automated network coverage estimation (RADIANCE), a generative adversarial network (GAN) based approach for synthesizing RF maps in indoor scenarios. RADIANCE utilizes a semantic map, a high-level representation of the indoor environment to encode spatial relationships and attributes of objects within the environment and guide the RF map generation process. We introduce a new gradient-based loss function that computes the magnitude and direction of change in received signal strength (RSS) values from a point within the environment. RADIANCE incorporates this loss function along with the antenna pattern to capture signal propagation within a given indoor configuration and generate new patterns under new configuration, antenna (beam) pattern, and center frequency. Extensive simulations are conducted to compare RADIANCE with ray-tracing simulations of RF maps. Our results show that RADIANCE achieves a mean average error (MAE) of 0.09, root-mean-squared error (RMSE) of 0.29, peak signal-to-noise ratio (PSNR) of 10.78, and multi-scale structural similarity index (MS-SSIM) of 0.80.

Planning is a fundamental capability for large language models (LLMs) because such complex tasks require models to coordinate goals, constraints, resources, and long-term consequences into executable and verifiable solutions. Existing planning benchmarks, however, usually treat planning data as fixed collections of instances rather than controllable generation targets. This limits scenario coverage, ties difficulty to surface-level proxies rather than structural sources, and offers limited support for scalable generation, automatic verification, or planning-oriented training. We introduce PlanningBench, a framework for generating scalable, diverse, and verifiable planning data for both evaluation and training. PlanningBench starts from real planning scenarios and abstracts practical workflows into a structured taxonomy of more than 30 task types, subtasks, constraint families, and difficulty factors. Guided by this taxonomy, a constraint-driven synthesis pipeline instantiates self-contained planning problems with adaptive difficulty control, quality filtering, and instance-level verification checklists. This shifts planning data construction from fixed benchmark collection to controllable generation while preserving realistic task grounding. We use PlanningBench to evaluate open-source and closed-source frontier LLMs, and find that current models still struggle to produce complete solutions under coupled constraints. Beyond evaluation, reinforcement learning on verified PlanningBench data improves performance on unseen planning benchmarks and broader instruction-following tasks. Further analysis suggests that determinate or well-specified optimal solutions provide clearer reward signals and more stable training dynamics. Overall, PlanningBench provides a controllable source of planning data for diagnosing and improving generalizable planning abilities in LLMs.

Recent work synthesizes agentic tasks for post-training tool-using LLMs, yet robust generalization under shifts in tasks and toolsets remains an open challenge. We trace this brittleness to insufficient diversity in synthesized tasks. Scaling diversity is difficult because training requires tasks to remain executable and verifiable, while generalization demands coverage of diverse tool types, toolset combinations, and heterogeneous tool-use patterns. We propose DIVE, an evidence-driven recipe that inverts synthesis order, executing diverse, real-world tools first and reverse-deriving tasks strictly entailed by the resulting traces, thereby providing grounding by construction. DIVE scales structural diversity along two controllable axes, tool-pool coverage and per-task toolset variety, and an Evidence Collection--Task Derivation loop further induces rich multi-step tool-use patterns across 373 tools in five domains. Training Qwen3-8B on DIVE data (48k SFT + 3.2k RL) improves by +22 average points across 9 OOD benchmarks and outperforms the strongest 8B baseline by +68. Remarkably, controlled scaling analysis reveals that diversity scaling consistently outperforms quantity scaling for OOD generalization, even with 4x less data.

Large Language Models (LLMs) have advanced Graph Neural Networks (GNNs) by enriching node representations with semantic features, giving rise to LLM-enhanced GNNs that achieve notable performance gains. However, the robustness of these models against poisoning attacks, which manipulate both graph structures and textual attributes during training, remains unexplored. To bridge this gap, we propose a robustness assessment framework that systematically evaluates LLM-enhanced GNNs under poisoning attacks. Our framework enables comprehensive evaluation across multiple dimensions. Specifically, we assess 24 victim models by combining eight LLM- or Language Model (LM)-based feature enhancers with three representative GNN backbones. To ensure diversity in attack coverage, we incorporate six structural poisoning attacks (both targeted and non-targeted) and three textual poisoning attacks operating at the character, word, and sentence levels. Furthermore, we employ four real-world datasets, including one released after the emergence of LLMs, to avoid potential ground truth leakage during LLM pretraining, thereby ensuring fair evaluation. Extensive experiments show that LLM-enhanced GNNs exhibit significantly higher accuracy and lower Relative Drop in Accuracy (RDA) than a shallow embedding-based baseline across various attack settings. Our in-depth analysis identifies key factors that contribute to this robustness, such as the effective encoding of structural and label information in node representations. Based on these insights, we outline future research directions from both offensive and defensive perspectives, and propose a new combined attack along with a graph purification defense. To support future research, we release the source code of our framework at~https://github.com/CyberAlSec/LLMEGNNRP.

Instruction-tuned language models increasingly rely on large multi-turn dialogue corpora, but these datasets are often noisy and structurally inconsistent, with topic drift, repetitive chitchat, and mismatched answer formats across turns. We address this from a data selection perspective and propose MDS (Multi-turn Dialogue Selection), a dialogue-level framework that scores whole conversations rather than isolated turns. MDS combines a global coverage stage that performs bin-wise selection in the user-query trajectory space to retain representative yet non-redundant dialogues, with a local structural stage that evaluates within-dialogue reliability through entity-grounded topic grounding and information progress, together with query-answer form consistency for functional alignment. MDS outperforms strong single-turn selectors, dialogue-level LLM scorers, and heuristic baselines on three multi-turn benchmarks and an in-domain Banking test set, achieving the best overall rank across reference-free and reference-based metrics, and is more robust on long conversations under the same training budget. Code and resources are included in the supplementary materials.

Multimodal Large Language Models demonstrate strong performance on natural image understanding, yet exhibit limited capability in interpreting scientific images, including but not limited to schematic diagrams, experimental characterizations, and analytical charts. This limitation is particularly pronounced in open-source MLLMs. The gap largely stems from existing datasets with limited domain coverage, coarse structural annotations, and weak semantic grounding. We introduce OmniScience, a large-scale, high-fidelity multi-modal dataset comprising 1.5 million figure-caption-context triplets, spanning more than 10 major scientific disciplines. To obtain image caption data with higher information density and accuracy for multi-modal large-model training, we develop a dynamic model-routing re-captioning pipeline that leverages state-of-the-art multi-modal large language models to generate dense, self-contained descriptions by jointly synthesizing visual features, original figure captions, and corresponding in-text references authored by human scientists. The pipeline is further reinforced with rigorous quality filtering and alignment with human expert judgments, ensuring both factual accuracy and semantic completeness, and boosts the image-text multi-modal similarity score from 0.769 to 0.956. We further propose a caption QA protocol as a proxy task for evaluating visual understanding. Under this setting, Qwen2.5-VL-3B model finetuned on OmniScience show substantial gains over baselines, achieving a gain of 0.378 on MM-MT-Bench and a gain of 0.140 on MMMU.

When automated decision systems fail, organizations frequently discover that formally compliant governance infrastructure cannot reconstruct what happened or why. This paper synthesizes an operational governance evidence framework -- structural accountability collapse diagnostics, decision trace schemas, evidence sufficiency measurement, and label-free monitoring -- into an integrated chain and analytically assesses its transferability across four decision system architectures. The cross-architecture comparison reveals a governance coverage gradient: deterministic rule engines achieve full DES-property fillability, hybrid ML+rules systems achieve partial fillability, classical ML systems achieve only minimal fillability, and agentic AI systems encounter structural breaks. We introduce the cascade of uncertainty, showing how governance failures propagate through serial dependencies between framework layers. For agentic systems, we identify three structural breaks -- decision diffusion, evidence fragmentation, and responsibility ambiguity -- and propose corresponding analytical extensions. Four propositions formalize the gradient, cascade compounding, delegation-depth effects, and extension sufficiency, establishing boundary conditions for the framework's valid operating envelope.

ATANT v1.0 (arXiv:2604.06710) defined continuity as a system property with 7 required properties and introduced a 10-checkpoint, LLM-free evaluation methodology validated on a 250-story corpus. Since publication, a recurring reviewer and practitioner question has concerned not the framework itself but its relationship to a wider set of memory evaluations: LOCOMO, LongMemEval, BEAM, MemoryBench, Zep's evaluation suite, Letta/MemGPT's evaluations, and RULER. This companion paper, v1.1, does not modify the v1.0 standard. It closes a related-work gap that v1.0 left brief under page limits. We show by structural analysis that none of these benchmarks measures continuity as defined in v1.0: of the 7 required properties, the median existing eval covers 1 property, the mean covers 0.43 when partial credit is scored at 0.5, and no eval covers more than 2. We provide a cell-by-cell property-coverage matrix, identify methodological defects specific to each benchmark (including an empty-gold scoring bug in the LOCOMO reference implementation that renders 23% of its corpus unscorable by construction), and publish our reference implementation's LOCOMO score (8.8%) alongside the structural reason that number is uninformative about continuity. We publish our 8.8% LOCOMO score alongside our 96% ATANT cumulative-scale score as a calibration pair: the 87-point divergence is evidence that the two benchmarks measure different properties, not that one system is an order of magnitude better than another. The position v1.1 takes is not adversarial: each benchmark measures a real capability. The claim is that none of them can adjudicate continuity, and conflating them with continuity evaluation has led the field to under-invest in the properties v1.0 names.

Large language model (LLM) contexts are typically constructed using retrieval-augmented generation (RAG), which involves ranking and selecting the top-k passages. The approach causes fragmentation in information graphs in document structures, over-retrieval, and duplication of content alongside insufficient query context, including 2nd and 3rd order facets. In this paper, a structure-informed and diversity-constrained context bubble construction framework is proposed that assembles coherent, citable bundles of spans under a strict token budget. The method preserves and exploits inherent document structure by organising multi-granular spans (e.g., sections and rows) and using task-conditioned structural priors to guide retrieval. Starting from high-relevance anchor spans, a context bubble is constructed through constrained selection that balances query relevance, marginal coverage, and redundancy penalties. It will explicitly constrain diversity and budget, producing compact and informative context sets, unlike top-k retrieval. Moreover, a full retrieval is emitted that traces the scoring and selection choices of the records, thus providing auditability and deterministic tuning. Experiments on enterprise documents demonstrate the efficiency of context bubble as it significantly reduces redundant context, is better able to cover secondary facets and has a better answer quality and citation faithfulness within a limited context window. Ablation studies demonstrate that both structural priors as well as diversity constraint selection are necessary; removing either component results in a decline in coverage and an increase in redundant or incomplete context.

The evolution of Large Language Models (LLMs) towards autonomous agents has catalyzed progress in Deep Research. While retrieval capabilities are well-benchmarked, the post-retrieval synthesis stage--where agents must digest massive amounts of context and consolidate fragmented evidence into coherent, long-form reports--remains under-evaluated due to the subjectivity of open-ended writing. To bridge this gap, we introduce DeepSynth-Eval, a benchmark designed to objectively evaluate information consolidation capabilities. We leverage high-quality survey papers as gold standards, reverse-engineering research requests and constructing "Oracle Contexts" from their bibliographies to isolate synthesis from retrieval noise. We propose a fine-grained evaluation protocol using General Checklists (for factual coverage) and Constraint Checklists (for structural organization), transforming subjective judgment into verifiable metrics. Experiments across 96 tasks reveal that synthesizing information from hundreds of references remains a significant challenge. Our results demonstrate that agentic plan-and-write workflows significantly outperform single-turn generation, effectively reducing hallucinations and improving adherence to complex structural constraints.

The theories of offline and online reinforcement learning, despite having evolved in parallel, have begun to show signs of the possibility for a unification, with algorithms and analysis techniques for one setting often having natural counterparts in the other. However, the notion of density ratio modeling, an emerging paradigm in offline RL, has been largely absent from online RL, perhaps for good reason: the very existence and boundedness of density ratios relies on access to an exploratory dataset with good coverage, but the core challenge in online RL is to collect such a dataset without having one to start. In this work we show -- perhaps surprisingly -- that density ratio-based algorithms have online counterparts. Assuming only the existence of an exploratory distribution with good coverage, a structural condition known as coverability (Xie et al., 2023), we give a new algorithm (GLOW) that uses density ratio realizability and value function realizability to perform sample-efficient online exploration. GLOW addresses unbounded density ratios via careful use of truncation, and combines this with optimism to guide exploration. GLOW is computationally inefficient; we complement it with a more efficient counterpart, HyGLOW, for the Hybrid RL setting (Song et al., 2022) wherein online RL is augmented with additional offline data. HyGLOW is derived as a special case of a more general meta-algorithm that provides a provable black-box reduction from hybrid RL to offline RL, which may be of independent interest.

We present BioMatrix, the first multimodal foundation model that natively integrates sequences, structures, and natural language for both molecules and proteins within a single decoder-only architecture. Existing biological foundation models pursue native multimodality and broad entity coverage separately: those that fuse multiple modalities under a shared objective remain confined to a single entity type, while those spanning multiple entity types either omit explicit structural modeling or rely on adapter-based designs in which the model cannot natively generate the very modalities it can read. BioMatrix closes this gap by mapping molecular sequences (supporting both SMILES and SELFIES notations), molecular structures, protein sequences, protein structures, and natural language into a shared discrete token space through a unified tokenization scheme, so that all modalities are consumed and produced uniformly under a single next-token prediction objective -- without external encoders, projection adapters, or modality-specific output heads. Built upon the Qwen3 language model (1.7B and 4B), BioMatrix is continually pretrained on 304.4 billion tokens spanning general and domain-specific text, sequence and structure views of molecules and proteins, and cross-modal corpora that interleave biomolecular entities with scientific text and link distinct entities through molecule-protein and protein-protein interaction data. After tuning on a comprehensive suite of downstream applications covering 80 tasks across 6 categories -- encompassing single-entity and multi-entity understanding and generation tasks across and within modalities -- BioMatrix achieves state-of-the-art or competitive performance on 77 out of 80 tasks, demonstrating that a single, natively multimodal generalist model can effectively match or surpass specialized approaches across a wide range of biological tasks.

Constructing Knowledge Graphs (KGs) from unstructured text provides a structured framework for knowledge representation and reasoning, yet current LLM-based approaches struggle with a fundamental trade-off: factual coverage often leads to relational fragmentation, while premature consolidation causes information loss. To address this, we propose SocraticKG, an automated KG construction method that introduces question-answer pairs as a structured intermediate representation to systematically unfold document-level semantics prior to triple extraction. By employing 5W1H-guided QA expansion, SocraticKG captures contextual dependencies and implicit relational links typically lost in direct KG extraction pipelines, providing explicit grounding in the source document that helps mitigate implicit reasoning errors. Evaluation on the MINE benchmark demonstrates that our approach effectively addresses the coverage-connectivity trade-off, achieving superior factual retention while maintaining high structural cohesion even as extracted knowledge volume substantially expands. These results highlight that QA-mediated semantic scaffolding plays a critical role in structuring semantics prior to KG extraction, enabling more coherent and reliable graph construction in subsequent stages.

Named entity disambiguation (NED), which involves mapping textual mentions to structured entities, is particularly challenging in the medical domain due to the presence of rare entities. Existing approaches are limited by the presence of coarse-grained structural resources in biomedical knowledge bases as well as the use of training datasets that provide low coverage over uncommon resources. In this work, we address these issues by proposing a cross-domain data integration method that transfers structural knowledge from a general text knowledge base to the medical domain. We utilize our integration scheme to augment structural resources and generate a large biomedical NED dataset for pretraining. Our pretrained model with injected structural knowledge achieves state-of-the-art performance on two benchmark medical NED datasets: MedMentions and BC5CDR. Furthermore, we improve disambiguation of rare entities by up to 57 accuracy points.

The growth of agent skills has transformed how agentic systems are built, evaluated, and deployed. As skill libraries continue to scale, rigorous evaluation becomes critical to ensuring their utility, quality, and safety in real-world applications. Consequently, the field is undergoing an emerging paradigm shift from isolated skill creation to automated, evaluation-driven skill evolution. In this survey, we systematically examine the landscape of skill evolution and evaluation beyond foundational skill creation. We categorize evolution into four distinct paradigms, spanning execution feedback, trajectory distillation, compression, and reinforcement learning, showing how each element contributes to improving skill utility and reliability. We also provide an analysis of six skill-centric benchmark categories, identifying structural gaps in benchmark coverage, trade-offs, and metric richness to advance skill research. Finally, we identify open directions for building skill ecosystems that are generalizable, efficient, and verifiably safe. The project URL is https://github.com/Cassie07/AgentSkill_Survey

The rapid advancement of Large Language Models (LLMs) has outpaced traditional evaluation methods. Static benchmarks fail to capture the depth and breadth of LLM capabilities and eventually become obsolete, while most dynamic approaches either rely too heavily on LLM-based evaluation or remain constrained by predefined test sets. We introduce Prism, a flexible, dynamic benchmarking framework designed for comprehensive LLM assessment. Prism builds on three key components: (1) a tree-based state representation that models evaluation as a Markov Decision Process, (2) a Monte Carlo Tree Search algorithm adapted to uncover challenging evaluation scenarios, and (3) a multi-agent evaluation pipeline that enables simultaneous assessment of diverse capabilities. To ensure robust evaluation, Prism integrates structural measurements of tree exploration patterns with performance metrics across difficulty levels, providing detailed diagnostics of error patterns, test coverage, and solution approaches. Through extensive experiments on five state-of-the-art LLMs, we analyze how model architecture and scale influence code generation performance across varying task difficulties. Our results demonstrate Prism's effectiveness as a dynamic benchmark that evolves with model advancements while offering deeper insights into their limitations.

Retrieval-Augmented Generation (RAG) enhances large language models (LLMs) by incorporating external knowledge, yet traditional single-round retrieval struggles with complex multi-step reasoning. Agentic RAG addresses this by enabling LLMs to dynamically decide when and what to retrieve, but current RL-based training methods suffer from sparse outcome rewards that discard intermediate signals and low sample efficiency where failed samples contribute nothing. We propose Search-P1, a framework that introduces path-centric reward shaping for agentic RAG training, comprising two key components: (1) Path-Centric Reward, which evaluates the structural quality of reasoning trajectories through order-agnostic step coverage and soft scoring that extracts learning signals even from failed samples, and (2) Dual-Track Path Scoring with offline-generated reference planners that assesses paths from both self-consistency and reference-alignment perspectives. Experiments on multiple QA benchmarks demonstrate that Search-P1 achieves significant improvements over Search-R1 and other strong baselines, with an average accuracy gain of 7.7 points.

Active mapping aims to determine how an agent should move to efficiently reconstruct an unknown environment. Most existing approaches rely on greedy next-best-view prediction, resulting in inefficient exploration and incomplete scene reconstruction. To address this limitation, we introduce MAGICIAN, a novel long-term planning framework that maximizes accumulated surface coverage gain through Imagined Gaussians, a scene representation derived from a pre-trained occupancy network with strong structural priors. This representation enables efficient computation of coverage gain for any novel viewpoint via fast volumetric rendering, allowing its integration into a tree-search algorithm for long-horizon planning. We update Imagined Gaussians and refine the planned trajectory in a closed-loop manner. Our method achieves state-of-the-art performance across indoor and outdoor benchmarks with varying action spaces, demonstrating the critical advantage of long-term planning in active mapping.

Document Layout analysis (DLA), is the process by which a page is parsed into meaningful elements, often using machine learning models. Typically, the quality of a model is judged using general object detection metrics such as IoU, F1 or mAP. However, these metrics are designed for images that are 2D projections of 3D space, not for the natively 2D imagery of printed media. This discrepancy can result in misleading or uninformative interpretation of model performance by the metrics. To encourage more robust, comparable, and nuanced DLA, we introduce: The Structural Semantic Unit (SSU) a relational labelling approach that shifts the focus from the physical to the semantic structure of the content; and the Coverage, Overlap, Trespass, and Excess (COTe) score, a decomposable metric for measuring page parsing quality. We demonstrate the value of these methods through case studies and by evaluating 5 common DLA models on 3 DLA datasets. We show that the COTe score is more informative than traditional metrics and reveals distinct failure modes across models, such as breaching semantic boundaries or repeatedly parsing the same region. In addition, the COTe score reduces the interpretation-performance gap by up to 76% relative to the F1. Notably, we find that the COTe's granularity robustness largely holds even without explicit SSU labelling, lowering the barriers to entry for using the system. Finally, we release an SSU labelled dataset and a Python library for applying COTe in DLA projects.

The advent of Intelligent Tutoring Systems (ITSs) has marked a paradigm shift in education, enabling highly personalized learning pathways. However, true personalization requires adapting to learners' complex knowledge states (multi-source) and diverse goals (multi-sink); existing ITSs often lack the necessary structural-reasoning capability and knowledge dynamism to generate genuinely effective learning paths, and they lack scientifically rigorous validation paradigms. In this paper we propose GraphMASAL (A Graph-based Multi-Agent System for Adaptive Learning), which integrates (i) a dynamic knowledge graph for persistent, stateful learner modeling; (ii) a LangGraph-orchestrated trio of agents (Diagnostician, Planner, Tutor); (iii) a knowledge-graph-grounded two-stage neural IR component (dual-encoder dense retrieval with cross-encoder listwise re-ranking and calibrated score fusion); and (iv) a multi-source multi-sink (MSMS) planning engine with a cognitively grounded cost and an approximation guarantee via greedy set cover. Under blinded automated evaluations with matched inputs and inference settings across diverse student profiles, GraphMASAL consistently outperforms LLM prompting and structured ablations in planning--achieving stronger structural/sequence alignment of learning paths, higher coverage of weak concepts, and lower learning cost--while also surpassing prompt-based baselines in cognitive diagnosis. Agreement with expert/LLM-proxy ratings further supports the validity of our evaluation protocol. These findings indicate that grounding LLM agents in a dynamic knowledge graph, coupled with optimization under educational constraints, yields reliable, interpretable, and pedagogically plausible learning plans, advancing personalized and goal-oriented education.

Reinforcement Learning (RL) has demonstrated tremendous empirical success across numerous challenging domains. However, we lack a strong theoretical understanding of the statistical complexity of RL in environments with large state spaces, where function approximation is required for sample-efficient learning. This thesis addresses this gap by rigorously examining the statistical complexity of RL with function approximation from a learning theoretic perspective. Departing from a long history of prior work, we consider the weakest form of function approximation, called agnostic policy learning, in which the learner seeks to find the best policy in a given class Pi, with no guarantee that Pi contains an optimal policy for the underlying task. We systematically explore agnostic policy learning along three key axes: environment access -- how a learner collects data from the environment; coverage conditions -- intrinsic properties of the underlying MDP measuring the expansiveness of state-occupancy measures for policies in the class Pi, and representational conditions -- structural assumptions on the class Pi itself. Within this comprehensive framework, we (1) design new learning algorithms with theoretical guarantees and (2) characterize fundamental performance bounds of any algorithm. Our results reveal significant statistical separations that highlight the power and limitations of agnostic policy learning.

We wish to measure the information coverage of an ad hoc retrieval algorithm, that is, how much of the range of available relevant information is covered by the search results. Information coverage is a central aspect for retrieval, especially when the retrieval system is integrated with generative models in a retrieval-augmented generation (RAG) system. The classic metrics for ad hoc retrieval, precision and recall, reward a system as more and more relevant documents are retrieved. However, since relevance in ad hoc test collections is defined for a document without any relation to other documents that might contain the same information, high recall is sufficient but not necessary to ensure coverage. The same is true for other metrics such as rank-biased precision (RBP), normalized discounted cumulative gain (nDCG), and mean average precision (MAP). Test collections developed around the notion of diversity ranking in web search incorporate multiple aspects that support a concept of coverage in the web domain. In this work, we construct a suite of collections for evaluating information coverage from existing collections. This suite offers researchers a unified testbed spanning multiple genres and tasks. All topics, nuggets, relevance labels, and baseline rankings are released on Hugging Face Datasets, along with instructions for accessing the publicly available document collections.

Web search is an essential way for humans to obtain information, but it's still a great challenge for machines to understand the contents of web pages. In this paper, we introduce the task of structural reading comprehension (SRC) on web. Given a web page and a question about it, the task is to find the answer from the web page. This task requires a system not only to understand the semantics of texts but also the structure of the web page. Moreover, we proposed WebSRC, a novel Web-based Structural Reading Comprehension dataset. WebSRC consists of 400K question-answer pairs, which are collected from 6.4K web pages. Along with the QA pairs, corresponding HTML source code, screenshots, and metadata are also provided in our dataset. Each question in WebSRC requires a certain structural understanding of a web page to answer, and the answer is either a text span on the web page or yes/no. We evaluate various baselines on our dataset to show the difficulty of our task. We also investigate the usefulness of structural information and visual features. Our dataset and baselines have been publicly available at https://x-lance.github.io/WebSRC/.

Structural topology optimization (TO) is central to engineering design but remains computationally intensive due to complex physics and hard constraints. Existing deep-learning methods are limited to fixed square grids, a few hand-coded boundary conditions, and post-hoc optimization, preventing general deployment. We introduce Optimize Any Topology (OAT), a foundation-model framework that directly predicts minimum-compliance layouts for arbitrary aspect ratios, resolutions, volume fractions, loads, and fixtures. OAT combines a resolution- and shape-agnostic autoencoder with an implicit neural-field decoder and a conditional latent-diffusion model trained on OpenTO, a new corpus of 2.2 million optimized structures covering 2 million unique boundary-condition configurations. On four public benchmarks and two challenging unseen tests, OAT lowers mean compliance up to 90% relative to the best prior models and delivers sub-1 second inference on a single GPU across resolutions from 64 x 64 to 256 x 256 and aspect ratios as high as 10:1. These results establish OAT as a general, fast, and resolution-free framework for physics-aware topology optimization and provide a large-scale dataset to spur further research in generative modeling for inverse design. Code & data can be found at https://github.com/ahnobari/OptimizeAnyTopology.

Addressing a structural-engineering request requires more than a single answer; it requires a chain of interdependent artifacts: interpreted requirements, a computable model, validation records, solver outputs, code-check records, and a final report. Evaluations centered on question answering or script generation rarely verify this complete evidence chain and may therefore reward fluent outputs even when the underlying engineering workflow is incomplete, internally inconsistent, or non-executable. To address this limitation, we present StructureClaw, an artifact-centered workbench in which LLM agents operate through governed engineering skills, typed tools, shared artifact state, and local analysis backends. We also introduce StructureClaw-Bench, an executable benchmark of 150 controlled scenarios spanning standard workflow execution, interactive robustness, and multimodal structural-model reconstruction. A scenario succeeds only when all required artifact- and execution-level assertions pass in a single run. Across ten agent-model configurations, each evaluated on the same 50 standard cases, the average Success Rate rises from 56.8% with the generic-skill baseline to 88.6% with the full automatic workflow. The interactive and multimodal evaluations identify two prominent remaining challenges: safe handling of invalid numerical inputs and fixture-consistent reconstruction of structural models. These findings show that artifact-centered evaluation can expose workflow-level failures that are difficult to identify from final responses alone, providing a more rigorous basis for evaluating and improving structural-engineering agents. The code and benchmark are available at https://github.com/structureclaw/structureclaw.

Long-form Retrieval-Augmented Generation (RAG) brings the challenge of coverage-based ranking, because ranking methods must ensure the inclusion of comprehensive relevant nuggets (i.e., facts), which can thereby be synthesized into a comprehensive output. In this work, we propose CoveR (Our code is available at https://github.com/DylanJoo/CoveR ) a dense retrieval method optimized for coverage-aware retrieval scenarios. CoveR is a bi-encoder trained with the coverage-based contrastive and distillation objectives, which enables CoveR to capture diverse aspects of information needs. To train CoveR, we create the SCOPE dataset, (Our training data is available at https://huggingface.co/datasets/DylanJHJ/scope ) which comprises 90K training pairs from Researchy Questions with synthetic coverage signals augmented from sub-question answerability judgments generated by LLMs. Our empirical experiments show that CoveR enhances nugget coverage by 10\% over strong dense retrieval baselines without sacrificing its relevance-based retrieval capability. Further ablation studies validate the importance of our proposed learning method, showing that CoveR achieves a superior trade-off between relevance- and coverage-based ranking, which is essential for long-form RAG.

Structural fidelity is essential to scientific methodology diagrams. To communicate research logic, these diagrams must faithfully render components, directional relations, and textual annotations. Since a single error, such as a reversed arrow or an unreadable equation, can invalidate the entire figure, structural fidelity is inherently conjunctive: correctness on one axis cannot compensate for failure on another. Current open-source models fail to satisfy this criterion. Supervised fine-tuning (SFT) learns plausible layouts but cannot reliably ensure structural correctness, while scalar reward-based post-training obscures which structural dimension has failed. To address this, we introduce SciForma, a framework for the structure faithful generation of scientific methodology diagrams. Specifically, SciForma decomposes diagram quality into three structural axes: Component, Arrow, and Text, guided by a structural inventory. Built on this foundation, we curate SciFormaData-700K for structured training and SciFormaBench-2K for logic-verified evaluation. To close the gap left by SFT, we develop Multi-Dimensional Conjunctive Preference Optimization (M-DPO), which enforces simultaneous correctness across all axes and adaptively routes gradients to the most deficient dimension in post-training. The same structural inventory also enables iterative editing at inference time to correct residual errors. This combination allows SciForma-9B to exceed all open-source baselines and GPT-Image-1.5 on both SciFormaBench-2K and AIBench, bringing open scientific diagram generation close to proprietary-level structural fidelity. Our code and data will be available at: https://github.com/microsoft/SciForma.

Large language models (LLMs) excel in language tasks, especially with supervised fine-tuning after pre-training. However, their substantial memory and computational requirements hinder practical applications. Structural pruning, which reduces less significant weight dimensions, is one solution. Yet, traditional post-hoc pruning often leads to significant performance loss, with limited recovery from further fine-tuning due to reduced capacity. Since the model fine-tuning refines the general and chaotic knowledge in pre-trained models, we aim to incorporate structural pruning with the fine-tuning, and propose the Pruning-Aware Tuning (PAT) paradigm to eliminate model redundancy while preserving the model performance to the maximum extend. Specifically, we insert the innovative Hybrid Sparsification Modules (HSMs) between the Attention and FFN components to accordingly sparsify the upstream and downstream linear modules. The HSM comprises a lightweight operator and a globally shared trainable mask. The lightweight operator maintains a training overhead comparable to that of LoRA, while the trainable mask unifies the channels to be sparsified, ensuring structural pruning. Additionally, we propose the Identity Loss which decouples the transformation and scaling properties of the HSMs to enhance training robustness. Extensive experiments demonstrate that PAT excels in both performance and efficiency. For example, our Llama2-7b model with a 25\% pruning ratio achieves 1.33times speedup while outperforming the LoRA-finetuned model by up to 1.26\% in accuracy with a similar training cost. Code: https://github.com/kriskrisliu/PAT_Pruning-Aware-Tuning

We introduce Image2Struct, a benchmark to evaluate vision-language models (VLMs) on extracting structure from images. Our benchmark 1) captures real-world use cases, 2) is fully automatic and does not require human judgment, and 3) is based on a renewable stream of fresh data. In Image2Struct, VLMs are prompted to generate the underlying structure (e.g., LaTeX code or HTML) from an input image (e.g., webpage screenshot). The structure is then rendered to produce an output image (e.g., rendered webpage), which is compared against the input image to produce a similarity score. This round-trip evaluation allows us to quantitatively evaluate VLMs on tasks with multiple valid structures. We create a pipeline that downloads fresh data from active online communities upon execution and evaluates the VLMs without human intervention. We introduce three domains (Webpages, LaTeX, and Musical Scores) and use five image metrics (pixel similarity, cosine similarity between the Inception vectors, learned perceptual image patch similarity, structural similarity index measure, and earth mover similarity) that allow efficient and automatic comparison between pairs of images. We evaluate Image2Struct on 14 prominent VLMs and find that scores vary widely, indicating that Image2Struct can differentiate between the performances of different VLMs. Additionally, the best score varies considerably across domains (e.g., 0.402 on sheet music vs. 0.830 on LaTeX equations), indicating that Image2Struct contains tasks of varying difficulty. For transparency, we release the full results at https://crfm.stanford.edu/helm/image2struct/v1.0.1/.

Despite the power of Large Language Models (LLMs) like GPT-4, they still struggle with tasks that require generating complex, structured outputs. In this study, we assess the capability of Current LLMs in generating complex structured data and propose a structure-aware fine-tuning approach as a solution to improve this ability. To perform a comprehensive evaluation, we propose Struc-Bench, include five representative LLMs (i.e., GPT-NeoX 20B, GPT-3.5, GPT-4, and Vicuna) and evaluate them on our carefully constructed datasets spanning raw text, HTML, and LaTeX tables. Based on our analysis of current model performance, we identify specific common formatting errors and areas of potential improvement. To address complex formatting requirements, we utilize FormatCoT (Chain-of-Thought) to generate format instructions from target outputs. Our experiments show that our structure-aware fine-tuning method, when applied to LLaMA-7B, significantly improves adherence to natural language constraints, outperforming other evaluated LLMs. Based on these results, we present an ability map of model capabilities from six dimensions (i.e., coverage, formatting, reasoning, comprehension, pragmatics, and hallucination). This map highlights the weaknesses of LLMs in handling complex structured outputs and suggests promising directions for future work. Our code and models can be found at https://github.com/gersteinlab/Struc-Bench.

Different from the flow semantics of natural languages, programming languages are inherently rigid in structure and grammar. Existing fine-tuning methodologies for code vulnerability detection generally treat code as long text sequences, stripping away structural elements such as newlines ('/n') and whitespace. However, this approach inadvertently results in the loss of crucial structural information, diminishing the distinct characteristics of code and impairing the accuracy of vulnerability detection. To address these challenges, we propose a novel network architecture method based on pre-trained code models, which incorporates structural information awareness. We propose an enhanced code text processing workflow that retains structural elements prior to modeling. This refinement allows the model to retain and exploit line-level structural information and semantic information during the modeling process. Furthermore, we introduce a new network architecture, the Code Structure-Aware Network through Line-level Semantic Learning (CSLS), which integrates three key components: global vulnerability awareness, line-structural awareness, and sensitive-line awareness. We have conducted comprehensive experiments using vulnerability detection datasets from real-world projects. Extensive experiments were conducted on vulnerability detection datasets derived from real-world projects. The results demonstrate that our new code pre-processing flow significantly improves existing baselines (e.g., a 3\% accuracy improvement on the Devign dataset when applied to popular models such as CoderBert and UniXcoder). The proposed network architecture also demonstrates superior accuracy in detecting vulnerabilities, surpassing newly established benchmarks. These findings underscore the importance of structural information in enhancing the efficacy of code vulnerability detection models.

Recent advances in large language models for test case generation have improved branch coverage via prompt-engineered mutations. However, they still lack principled mechanisms for steering models toward specific high-risk execution branches, limiting their effectiveness for discovering subtle bugs and security vulnerabilities. We propose GLMTest, the first program structure-aware LLM framework for targeted test case generation that seamlessly integrates code property graphs and code semantics using a graph neural network and a language model to condition test case generation on execution branches. This structured conditioning enables controllable and branch-targeted test case generation, thereby potentially enhancing bug and security risk discovery. Experiments on real-world projects show that GLMTest built on a Qwen2.5-Coder-7B-Instruct model improves branch accuracy from 27.4% to 50.2% on TestGenEval benchmark compared with state-of-the-art LLMs, i.e., Claude-Sonnet-4.5 and GPT-4o-mini.

Scientific surveys require not only summarizing large bodies of literature, but also organizing them into clear and coherent conceptual structures. Existing automatic survey generation methods typically focus on linear text generation and struggle to explicitly model hierarchical relations among research topics and structured methodological comparisons, resulting in gaps in structural organization compared to expert-written surveys. We propose MVSS, a multi-view structured survey generation framework that jointly generates and aligns citation-grounded hierarchical trees, structured comparison tables, and survey text. MVSS follows a structure-first paradigm: it first constructs a conceptual tree of the research domain, then generates comparison tables constrained by the tree, and finally uses both as structural constraints for text generation. This enables complementary multi-view representations across structure, comparison, and narrative. We introduce an evaluation framework assessing structural quality, comparative completeness, and citation fidelity. Experiments on 76 computer science topics show MVSS outperforms existing methods in organization and evidence grounding, achieving performance comparable to expert surveys.

Anatomical structure labels for chest radiographs are essential for medical image segmentation and a broad range of downstream diagnostic tasks. However, annotating anatomy directly on 2D chest radiographs is labor-intensive and intrinsically ambiguous, as 3D anatomical structures are projected onto a single 2D plane where boundaries may overlap, be occluded, or appear only partially visible. Consequently, existing anatomy-labeled chest radiograph datasets remain limited in scale, anatomy coverage, and label reliability. To address these limitations, we introduce RadGenome-Anatomy, the largest anatomy-labeled chest radiograph dataset, containing over 10 million segmentation masks across 210 anatomical structures in 25,692 studies. It is constructed by projecting large-scale 3D anatomical masks from CT volumes into 2D radiographic space through canonical radiographic geometry. This shifts annotation from directly tracing uncertain 2D boundaries to defining anatomy in volumetric space, where structures that overlap or become partially invisible in radiographs remain spatially separable. As a result, each 2D mask represents the physically grounded projected footprint of a volumetrically defined structure. The scale and broad anatomical coverage of RadGenome-Anatomy, including structures that are overlapping, partially visible, or difficult to delineate directly, enable research on geometric measurements as explicit evidence for chest radiograph interpretation. We demonstrate this by training XAnatomy to predict structure-specific masks and derive clinically relevant measurements, achieving diagnostic accuracies of 96.4%, 95.6%, and 89.2% for cardiomegaly, kyphosis, and scoliosis, respectively.

Large Language Models (LLMs) and Vision-Language Models (VLMs) are increasingly evaluated on table reasoning tasks, but the role of table representation remains under-explored. In practice, the same table content may appear in different structural formats, such as HTML, Markdown, and LaTeX, or as rendered images. However, existing evaluations often let content, format, layout, and modality vary together, making it difficult to isolate representation effects. We introduce TABVERSE, a controlled multimodal table benchmark that aligns the same table content across multiple structural formats and rendered images, with question category and difficulty tags. This design enables systematic evaluation of representation effects while holding table content fixed. We evaluate LLMs and VLMs across three tasks: Question Answering (QA), Structural Understanding Capability (SUC), and Structure Reconstruction (SR). Our results show that representation choice substantially affects table understanding. Models generally perform better with structured text than with rendered images, but the size of this gap depends on the task, model, and format. HTML is often the most robust text format, while row-sensitive structural tasks and syntactically usable LaTeX reconstruction remain challenging. These findings show that table representation is a key factor in reliable table evaluation.

Parameter inference, i.e. inferring the posterior distribution of the parameters of a statistical model given some data, is a central problem to many scientific disciplines. Generative models can be used as an alternative to Markov Chain Monte Carlo methods for conducting posterior inference, both in likelihood-based and simulation-based problems. However, assessing the accuracy of posteriors encoded in generative models is not straightforward. In this paper, we introduce `Tests of Accuracy with Random Points' (TARP) coverage testing as a method to estimate coverage probabilities of generative posterior estimators. Our method differs from previously-existing coverage-based methods, which require posterior evaluations. We prove that our approach is necessary and sufficient to show that a posterior estimator is accurate. We demonstrate the method on a variety of synthetic examples, and show that TARP can be used to test the results of posterior inference analyses in high-dimensional spaces. We also show that our method can detect inaccurate inferences in cases where existing methods fail.

Automated analysis for engineering structures offers considerable potential for boosting efficiency by minimizing repetitive tasks. Although AI-driven methods are increasingly common, no systematic framework yet leverages Large Language Models (LLMs) for automatic structural analysis. To address this gap, we propose a novel framework that integrates LLMs with structural analysis software. LLMs serve as the core engine: they parse structural descriptions from text and translate them into executable Python scripts. Moreover, the framework integrates the generative capabilities of LLMs with code-based finite element (FE) tools like OpenSeesPy. It employs domain-specific prompt design and in-context learning strategies to enhance the LLM's problem-solving capabilities and generative stability, enabling fully automated structural analysis from descriptive text to model outputs. In our experiments, we introduce a well-curated small-scale benchmark dataset of 20 structural analysis word problems (SAWPs) with ground-truth solutions and evaluate the performance of different LLMs within our framework in solving these SAWPs. The role of system instructions, crafted by structural engineers, is also investigated to understand their impact on LLM-driven structural analysis. Additionally, the generative stability of our framework is examined. Through multiple validation experiments on the benchmark, our results demonstrate that the proposed framework can substantially increase the level of automation in solving SAWPs compared to traditional methods. Quantitatively, the framework, built on GPT-4o, achieved 100% accuracy, surpassing GPT-4 (85%), Gemini 1.5 Pro (80%), and Llama-3.3 (30%) on the test examples. Furthermore, integrating domain-specific instructions enhanced performance by 30% on problems with asymmetrical structural configurations.

We develop a method to generate predictive regions that cover a multivariate response variable with a user-specified probability. Our work is composed of two components. First, we use a deep generative model to learn a representation of the response that has a unimodal distribution. Existing multiple-output quantile regression approaches are effective in such cases, so we apply them on the learned representation, and then transform the solution to the original space of the response. This process results in a flexible and informative region that can have an arbitrary shape, a property that existing methods lack. Second, we propose an extension of conformal prediction to the multivariate response setting that modifies any method to return sets with a pre-specified coverage level. The desired coverage is theoretically guaranteed in the finite-sample case for any distribution. Experiments conducted on both real and synthetic data show that our method constructs regions that are significantly smaller compared to existing techniques.

Vision-Language Models (VLMs) have demonstrated remarkable capabilities but suffer from significant computational overhead during inference. While visual token pruning offers a promising solution, existing methods predominantly rely on initial attention scores. This single-metric paradigm presents a critical flaw: high attention scores inherently collapse onto semantically similar regions, thereby severely reducing feature diversity and discarding vital contextual details. To address this, we introduce Structure-to-Semantics (STS), a novel two-stage visual token pruning framework that explicitly decouples the pruning process. The first stage employs a repulsion-based sampling mechanism to maximize spatial and structural diversity. The second stage leverages instruction-aware cross-attention to precisely filter out prompt-irrelevant tokens. This two-stage synergy constitutes the core of STS, first ensuring geometric coverage and then refining the retained tokens according to semantic relevance. Extensive evaluations demonstrate that STS mitigates the redundancy caused by attention-based selection, improving both structural diversity and fine-grained task alignment of the preserved visual tokens.

Graphs provide a natural representation of relational structure that arises across diverse domains. Despite this ubiquity, graph structure is typically learned in a modality- and task-isolated manner, where graph representations are constructed within individual task contexts and discarded thereafter. As a result, structural regularities across modalities and tasks are repeatedly reconstructed rather than accumulated at the level of intermediate graph representations. This motivates a representation-learning question: how should graph structure be organized so that it can persist and accumulate across heterogeneous modalities and tasks? We adopt a representation-centric perspective in which graph structure is treated as a structural substrate that persists across learning contexts. To instantiate this perspective, we propose G-Substrate, a graph substrate framework that organizes learning around shared graph structures. G-Substrate comprises two complementary mechanisms: a unified structural schema that ensures compatibility among graph representations across heterogeneous modalities and tasks, and an interleaved role-based training strategy that exposes the same graph structure to multiple functional roles during learning. Experiments across multiple domains, modalities, and tasks show that G-Substrate outperforms task-isolated and naive multi-task learning methods. The codebase, model, and datasets are available at https://github.com/zmli6/G-Substrate.

Structural neural network pruning aims to remove the redundant channels in the deep convolutional neural networks (CNNs) by pruning the filters of less importance to the final output accuracy. To reduce the degradation of performance after pruning, many methods utilize the loss with sparse regularization to produce structured sparsity. In this paper, we analyze these sparsity-training-based methods and find that the regularization of unpruned channels is unnecessary. Moreover, it restricts the network's capacity, which leads to under-fitting. To solve this problem, we propose a novel pruning method, named MaskSparsity, with pruning-aware sparse regularization. MaskSparsity imposes the fine-grained sparse regularization on the specific filters selected by a pruning mask, rather than all the filters of the model. Before the fine-grained sparse regularization of MaskSparity, we can use many methods to get the pruning mask, such as running the global sparse regularization. MaskSparsity achieves 63.03%-FLOPs reduction on ResNet-110 by removing 60.34% of the parameters, with no top-1 accuracy loss on CIFAR-10. On ILSVRC-2012, MaskSparsity reduces more than 51.07% FLOPs on ResNet-50, with only a loss of 0.76% in the top-1 accuracy. The code is released at https://github.com/CASIA-IVA-Lab/MaskSparsity. Moreover, we have integrated the code of MaskSparity into a PyTorch pruning toolkit, EasyPruner, at https://gitee.com/casia_iva_engineer/easypruner.

Multi-task learning has the potential to improve generalization by maximizing positive transfer between tasks while reducing task interference. Fully achieving this potential is hindered by manually designed architectures that remain static throughout training. On the contrary, learning in the brain occurs through structural changes that are in tandem with changes in synaptic strength. Thus, we propose Multi-Task Structural Learning (MTSL) that simultaneously learns the multi-task architecture and its parameters. MTSL begins with an identical single-task network for each task and alternates between a task-learning phase and a structural-learning phase. In the task learning phase, each network specializes in the corresponding task. In each of the structural learning phases, starting from the earliest layer, locally similar task layers first transfer their knowledge to a newly created group layer before being removed. MTSL then uses the group layer in place of the corresponding removed task layers and moves on to the next layers. Our empirical results show that MTSL achieves competitive generalization with various baselines and improves robustness to out-of-distribution data.

The effective utilization of structured data, integral to corporate data strategies, has been challenged by the rise of large language models (LLMs) capable of processing unstructured information. This shift prompts the question: can LLMs interpret structured data directly in its unstructured form? We propose an automatic evaluation data generation method for assessing LLMs' reasoning capabilities on structure-rich text to explore this. Our approach supports 8 structured languages and 29 tasks, generating data with adjustable complexity through controllable nesting and structural width. We introduce StrucText-Eval, a benchmark containing 5,800 pre-generated and annotated samples designed to evaluate how well LLMs understand and reason through structured text. StrucText-Eval is divided into two suites: a regular Test suite (3,712 samples) and a Test-Hard suite (2,088 samples), the latter emphasizing the gap between human and model performance on more complex tasks. Experimental results show that while open-source LLMs achieve a maximum accuracy of 74.9\% on the standard dataset, their performance drops significantly to 45.8\% on the harder dataset. In contrast, human participants reach an accuracy of 92.6\% on StrucText-Eval-Hard, highlighting LLMs' current limitations in handling intricate structural information. The benchmark and generation codes are open sourced in https://github.com/MikeGu721/StrucText-Eval

Claims made by individuals or entities are oftentimes nuanced and cannot be clearly labeled as entirely "true" or "false" -- as is frequently the case with scientific and political claims. However, a claim (e.g., "vaccine A is better than vaccine B") can be dissected into its integral aspects and sub-aspects (e.g., efficacy, safety, distribution), which are individually easier to validate. This enables a more comprehensive, structured response that provides a well-rounded perspective on a given problem while also allowing the reader to prioritize specific angles of interest within the claim (e.g., safety towards children). Thus, we propose ClaimSpect, a retrieval-augmented generation-based framework for automatically constructing a hierarchy of aspects typically considered when addressing a claim and enriching them with corpus-specific perspectives. This structure hierarchically partitions an input corpus to retrieve relevant segments, which assist in discovering new sub-aspects. Moreover, these segments enable the discovery of varying perspectives towards an aspect of the claim (e.g., support, neutral, or oppose) and their respective prevalence (e.g., "how many biomedical papers believe vaccine A is more transportable than B?"). We apply ClaimSpect to a wide variety of real-world scientific and political claims featured in our constructed dataset, showcasing its robustness and accuracy in deconstructing a nuanced claim and representing perspectives within a corpus. Through real-world case studies and human evaluation, we validate its effectiveness over multiple baselines.

The topology of the hyperlink graph among pages expressing different opinions may influence the exposure of readers to diverse content. Structural bias may trap a reader in a polarized bubble with no access to other opinions. We model readers' behavior as random walks. A node is in a polarized bubble if the expected length of a random walk from it to a page of different opinion is large. The structural bias of a graph is the sum of the radii of highly-polarized bubbles. We study the problem of decreasing the structural bias through edge insertions. Healing all nodes with high polarized bubble radius is hard to approximate within a logarithmic factor, so we focus on finding the best k edges to insert to maximally reduce the structural bias. We present RePBubLik, an algorithm that leverages a variant of the random walk closeness centrality to select the edges to insert. RePBubLik obtains, under mild conditions, a constant-factor approximation. It reduces the structural bias faster than existing edge-recommendation methods, including some designed to reduce the polarization of a graph.

Structural modeling is a fundamental component of computational engineering science, in which even minor physical inconsistencies or specification violations may invalidate downstream simulations. The potential of large language models (LLMs) for automatic generation of modeling code has been demonstrated. However, non-executable or physically inconsistent outputs remain prevalent under stringent engineering constraints. A framework for physics-consistent automatic building modeling is therefore proposed, integrating domain knowledge construction, constraint-oriented model alignment, and verification-driven evaluation. CivilInstruct is introduced as a domain-specific dataset that formalizes structural engineering knowledge and constraint reasoning to enable simulation-ready model generation. A two-stage fine-tuning strategy is further employed to enforce constraint satisfaction and application programming interface compliance, substantially reducing hallucinated and non-conforming outputs. MBEval is presented as a verification-driven benchmark that evaluates executability and structural dynamics consistency through closed-loop validation. Experimental results show consistent improvements over baselines across rigorous verification metrics. Our code is available at https://github.com/Jovanqing/AutoBM.

This paper presents a pioneering methodology, termed StructTuning, to efficiently transform foundation Large Language Models (LLMs) into domain specialists. It significantly minimizes the training corpus requirement to a mere 0.3% while achieving an impressive 50% of traditional knowledge injection performance. Our method is inspired by the educational processes for human students, particularly how structured domain knowledge from textbooks is absorbed and then applied to tackle real-world challenges through specific exercises. Based on this, we propose a novel two-stage knowledge injection strategy: Structure-aware Continual Pre-Training (SCPT) and Structure-aware Supervised Fine-Tuning (SSFT). In the SCPT phase, we organize the training data into an auto-generated taxonomy of domain knowledge, enabling LLMs to effectively memorize textual segments linked to specific expertise within the taxonomy's architecture. Subsequently, in the SSFT phase, we explicitly prompt models to reveal the underlying knowledge structure in their outputs, leveraging this structured domain insight to address practical problems adeptly. Our ultimate method has undergone extensive evaluations across model architectures and scales, using closed-book question-answering tasks on LongBench and MMedBench datasets. Remarkably, our method matches 50% of the improvement displayed by the state-of-the-art MMedLM2 on MMedBench, but with only 0.3% quantity of the training corpus. This breakthrough showcases the potential to scale up our StructTuning for stronger domain-specific LLMs. Code will be made public soon.

Evaluating conditional coverage remains one of the most persistent challenges in assessing the reliability of predictive systems. Although conformal methods can give guarantees on marginal coverage, no method can guarantee to produce sets with correct conditional coverage, leaving practitioners without a clear way to interpret local deviations. To overcome sample-inefficiency and overfitting issues of existing metrics, we cast conditional coverage estimation as a classification problem. Conditional coverage is violated if and only if some classifier can achieve lower risk than the target coverage. Through the choice of a (proper) loss function, the resulting risk difference gives a conservative estimate of natural miscoverage measures such as L1 and L2 distance, and can even separate the effects of over- and under-coverage, and non-constant target coverages. We call the resulting family of metrics excess risk of the target coverage (ERT). We show experimentally that the use of modern classifiers provides much higher statistical power than simple classifiers underlying established metrics like CovGap. Additionally, we use our metric to benchmark different conformal prediction methods. Finally, we release an open-source package for ERT as well as previous conditional coverage metrics. Together, these contributions provide a new lens for understanding, diagnosing, and improving the conditional reliability of predictive systems.

Deep research agents have attracted increasing attention for their ability to collect large-scale online information to acquire target knowledge, with recent efforts shifting from purely text-based information seeking to multimodal settings. However, existing agentic workflows are largely aligned with evidence accumulation models, which linearly aggregate evidence and lack principled mechanisms for handling contradictory information across heterogeneous modalities. Towards this end, we propose Struct-Searcher, a structural agentic workflow grounded in belief revision theory that explicitly maintains an evolving multimodal structural graph throughout the reasoning process, enabling effective conflict-aware multimodal deep information seeking. Extensive experiments across multiple benchmark datasets and backbone models demonstrate that Struct-Searcher is (1) plug-and-play and model-agnostic, yielding an average relative accuracy improvement of 17.2% on BrowseComp-VL across five different backbones. (2) top-performing, consistently outperforming state-of-the-art vision-language models (VLMs) and deep research agents, with relative accuracy improvements of 3.7% on MM-BrowseComp, 1.5% on HLE-VL, and 0.7% on BrowseComp-VL over the second-best competing approach.

Identifying the intent of a citation in scientific papers (e.g., background information, use of methods, comparing results) is critical for machine reading of individual publications and automated analysis of the scientific literature. We propose structural scaffolds, a multitask model to incorporate structural information of scientific papers into citations for effective classification of citation intents. Our model achieves a new state-of-the-art on an existing ACL anthology dataset (ACL-ARC) with a 13.3% absolute increase in F1 score, without relying on external linguistic resources or hand-engineered features as done in existing methods. In addition, we introduce a new dataset of citation intents (SciCite) which is more than five times larger and covers multiple scientific domains compared with existing datasets. Our code and data are available at: https://github.com/allenai/scicite.

Recent Vision-Language Models (e.g., ColPali) enable fine-grained Visual Document Retrieval (VDR) but incur prohibitive multi-vector index storage overhead. Existing training-free pruning methods either rely on heuristic layer choices or degrade sharply under aggressive compression, leading prior work to argue that effective high-compression pruning requires query-dependent training. We challenge this view with Structural Anchor Pruning (SAP), a self-calibrating, training-free, and query-agnostic index-time pruning framework with three components: (i) Score Retention (SR), a white-box per-layer compression diagnostic; (ii) SR-guided window selection, a procedure that automatically locates the structural pruning region for any backbone with no per-model hyperparameters; and (iii) a visual in-degree centrality scorer that identifies anchor patches within the selected window. On the ViDoRe v1/v2 benchmarks across three architectures spanning 18, 28, and 36 backbone layers, SAP retains over 90\% of NDCG@5 while pruning more than 90\% of visual tokens, without any per-model parameter tuning. Our layer-resolved SR analysis reveals an Alignment-Aggregation Divergence: the document's visual structure is preserved as a stable ``Structural Plateau'' within the backbone, but the final layers reshape this representation into a sparse, query-aligned form that is no longer suitable for pruning. This is the mechanistic reason SAP succeeds where final-layer methods fail.

Image inpainting has made significant advances in recent years. However, it is still challenging to recover corrupted images with both vivid textures and reasonable structures. Some specific methods only tackle regular textures while losing holistic structures due to the limited receptive fields of convolutional neural networks (CNNs). On the other hand, attention-based models can learn better long-range dependency for the structure recovery, but they are limited by the heavy computation for inference with large image sizes. To address these issues, we propose to leverage an additional structure restorer to facilitate the image inpainting incrementally. The proposed model restores holistic image structures with a powerful attention-based transformer model in a fixed low-resolution sketch space. Such a grayscale space is easy to be upsampled to larger scales to convey correct structural information. Our structure restorer can be integrated with other pretrained inpainting models efficiently with the zero-initialized residual addition. Furthermore, a masking positional encoding strategy is utilized to improve the performance with large irregular masks. Extensive experiments on various datasets validate the efficacy of our model compared with other competitors. Our codes are released in https://github.com/DQiaole/ZITS_inpainting.

Rapid, accurate, and descriptive building damage assessment is critical for directing post-disaster resources, yet current automated methods typically provide only binary (damaged/undamaged) or ordinal severity scales. This paper introduces DamageCAT, a framework that advances damage assessment through typology-based categorical classifications. We contribute: (1) the BD-TypoSAT dataset containing satellite image triplets from Hurricane Ida with four damage categories - partial roof damage, total roof damage, partial structural collapse, and total structural collapse - and (2) a hierarchical U-Net-based transformer architecture for processing pre- and post-disaster image pairs. Our model achieves 0.737 IoU and 0.846 F1-score overall, with cross-event evaluation demonstrating transferability across Hurricane Harvey, Florence, and Michael data. While performance varies across damage categories due to class imbalance, the framework shows that typology-based classifications can provide more actionable damage assessments than traditional severity-based approaches, enabling targeted emergency response and resource allocation.

Deep neural networks are vulnerable to adversarial examples, dictating the imperativeness to test the model's robustness before deployment. Transfer-based attackers craft adversarial examples against surrogate models and transfer them to victim models deployed in the black-box situation. To enhance the adversarial transferability, structure-based attackers adjust the backpropagation path to avoid the attack from overfitting the surrogate model. However, existing structure-based attackers fail to explore the convolution module in CNNs and modify the backpropagation graph heuristically, leading to limited effectiveness. In this paper, we propose backPropagation pAth Search (PAS), solving the aforementioned two problems. We first propose SkipConv to adjust the backpropagation path of convolution by structural reparameterization. To overcome the drawback of heuristically designed backpropagation paths, we further construct a DAG-based search space, utilize one-step approximation for path evaluation and employ Bayesian Optimization to search for the optimal path. We conduct comprehensive experiments in a wide range of transfer settings, showing that PAS improves the attack success rate by a huge margin for both normally trained and defense models.

Model cards describe model behavior through a mixture of textual descriptions and structured artifacts, including performance, configuration, and dataset tables. Existing model search systems rely predominantly on semantic similarity over text, which can produce homogeneous result sets and limit exploration of alternatives. We argue that model search is inherently comparative: users want models that are task-aligned yet differentiated in measurable ways. We hypothesize that this balance requires retrieval over condensed, high-quality evidence rather than verbose descriptions, and much of that evidence is concentrated in structured tables. We present StructuredSemanticSearch, a table-driven model search framework built on the ModelTables benchmark. Given a query, StructuredSemanticSearch combines a semantic baseline for task alignment with a structure-aware pipeline that discovers query-related model-card tables using table discovery operators such as unionability, joinability, and keyword search. Retrieved tables are mapped back to model cards under a controlled top-k budget, enabling fair comparison between text-based and table-based retrieval. Beyond retrieval, StructuredSemanticSearch adapts table integration to the model-table domain through orientation-aware integration, producing compact integrated views of tables from partially overlapping and sometimes transposed evidence tables. For evaluation, we introduce a nugget-based, auditable protocol that extracts compact evidence items from model cards, matches queries to condition- or intent-specific nuggets, and measures evidence coverage and diversity over retrieved model-card candidate sets. This protocol also provides a scalable path toward approximate, evidence-based labeling in dynamic model lakes. Experiments on 597 model-recommendation queries show improved nugget coverage for the structure-aware pipeline than semantic baseline