Dongxu Zhang

Dongxu Zhang, Sunil Mohan, Michaela Torkar et al.

We introduce ChemDisGene, a new dataset for training and evaluating multi-class multi-label document-level biomedical relation extraction models. Our dataset contains 80k biomedical research abstracts labeled with mentions of chemicals, diseases, and genes, portions of which human experts labeled with 18 types of biomedical relationships between these entities (intended for evaluation), and the remainder of which (intended for training) has been distantly labeled via the CTD database with approximately 78\% accuracy. In comparison to similar preexisting datasets, ours is both substantially larger and cleaner; it also includes annotations linking mentions to their entities. We also provide three baseline deep neural network relation extraction models trained and evaluated on our new dataset.

Tung Sum Thomas Kwok, Qian Qian, Xiaofeng Lin et al.

Large Language Models exhibit strong reasoning and semantic understanding capabilities but often hallucinate in domains that require expert knowledge, among which fabrications, the generation of factually incorrect yet fluent statements, pose the greatest risk in medical contexts. Existing medical hallucination datasets inadequately capture fabrication phenomena due to limited fabrication coverage, stylistic disparities between human and LLM-authored texts, and distributional drift during hallucinated sample synthesis. To address this, we propose a data-centric pipeline to generate realistic and word-level fabrications that preserve syntactic and stylistic fidelity while introducing subtle factual deviations, resulting in MedFabric. Building upon this dataset, we introduce ETHER, a modular word-level fabrication detector integrating Text2Table Decomposition, Word Masking and Filling and Hybrid Sentence Pair Evaluation to enhance factual alignment. Empirical results demonstrate that MedFabric outperforms state-of-the-art detectors by over 15% on word-level fabrication benchmarks while maintaining consistent performance across structural similarities, offering a comprehensive framework for reliable and domain-specific factuality detection.

Fan Xu, Zhi-an Huang, Haohuai He et al.

Accurate prediction of antibody-antigen binding affinity is fundamental to therapeutic design, yet remains constrained by severe label sparsity and the complexity of antigenic variations. In this paper, we propose AbLWR (Antibody-antigen binding affinity List-Wise Ranking), a novel framework that reformulates the conventional affinity regression task as a listwise ranking problem. To mitigate label sparsity, AbLWR incorporates a PU (Positive-Unlabeled) learning mechanism leveraging a dual-level contrastive objective and meta-optimized label refinement to learn robust representations. Furthermore, we address antigenic variation by employing a homologous antigen sampling strategy where Multi-Head Self-Attention (MHSA) explicitly models inter-sample relationships within training lists to capture subtle affinity nuances. Extensive experiments demonstrate that AbLWR significantly outperforms state-of-the-art baselines, improving the Precision@1 (P@1) by over 10$\%$ in randomized cross-validation experiments. Notably, case studies on Influenza and IL-33 validate its practical utility, demonstrating robust ranking consistency in distinguishing subtle viral mutations and efficiently prioritizing top-tier candidates for wet-lab screening.

Dongxu Zhang, Varun Gangal, Barrett Martin Lattimer et al.

Detecting hallucinations in large language model (LLM) outputs is pivotal, yet traditional fine-tuning for this classification task is impeded by the expensive and quickly outdated annotation process, especially across numerous vertical domains and in the face of rapid LLM advancements. In this study, we introduce an approach that automatically generates both faithful and hallucinated outputs by rewriting system responses. Experimental findings demonstrate that a T5-base model, fine-tuned on our generated dataset, surpasses state-of-the-art zero-shot detectors and existing synthetic generation methods in both accuracy and latency, indicating efficacy of our approach.

Dongxu Zhang, Zhichao Yang, Sepehr Janghorbani et al.

On-policy distillation (OPD), which samples trajectories from the student model and supervises them with a teacher at the token level, avoids relying solely on verifiable terminal rewards and can yield better generalization than off-policy distillation. However, OPD requires expensive on-the-fly sampling of the student policy during training, which substantially increases training cost, especially for long responses. Our initial analysis shows that, during OPD, training signals are often concentrated in the prefix of each output, and that even a short teacher-generated prefix can significantly help the student produce the correct answer. Motivated by these observations, we propose a simple yet effective modification of OPD: we apply the distillation objective only to prefixes of student-generated outputs and terminate each sampling early during distillation. Experiments on a suite of AI-for-Math and out-of-domain benchmarks show that on-policy prefix distillation matches the performance of full OPD while reducing training FLOP by 2x-47x.

Zhichao Yang, Sepehr Janghorbani, Dongxu Zhang et al.

Rubrics are essential for evaluating open-ended LLM responses, especially in safety-critical domains such as healthcare. However, creating high-quality and domain-specific rubrics typically requires significant human expertise time and development cost, making rubric-based evaluation and training difficult to scale. In this work, we introduce Health-SCORE, a generalizable and scalable rubric-based training and evaluation framework that substantially reduces rubric development costs without sacrificing performance. We show that Health-SCORE provides two practical benefits beyond standalone evaluation: it can be used as a structured reward signal to guide reinforcement learning with safety-aware supervision, and it can be incorporated directly into prompts to improve response quality through in-context learning. Across open-ended healthcare tasks, Health-SCORE achieves evaluation quality comparable to human-created rubrics while significantly lowering development effort, making rubric-based evaluation and training more scalable.

Junda Wang, Zhichao Yang, Dongxu Zhang et al.

Large reasoning models (LRMs) achieve state-of-the-art performance by generating long chains-of-thought, but often waste computation on redundant reasoning after the correct answer has already been reached. We introduce Early-Stopping for Token-Aware Reasoning (ESTAR), which detects and reduces such reasoning redundancy to improve efficiency without sacrificing accuracy. Our method combines (i) a trajectory-based classifier that identifies when reasoning can be safely stopped, (ii) supervised fine-tuning to teach LRMs to propose self-generated <stop> signals, and (iii) <stop>-aware reinforcement learning that truncates rollouts at self-generated stop points with compute-aware rewards. Experiments on four reasoning datasets show that ESTAR reduces reasoning length by about 3.7x (from 4,799 to 1,290) while preserving accuracy (74.9% vs. 74.2%), with strong cross-domain generalization. These results highlight early stopping as a simple yet powerful mechanism for improving reasoning efficiency in LRMs.

Dongxu Zhang, Yingsen Wang, Yiding Sun et al.

Robust point cloud registration is a fundamental task in 3D computer vision and geometric deep learning, essential for applications such as large-scale 3D reconstruction, augmented reality, and scene understanding. However, the performance of established learning-based methods often degrades in complex, real world scenarios characterized by incomplete data, sensor noise, and low overlap regions. To address these limitations, we propose CMHANet, a novel Cross-Modal Hybrid Attention Network. Our method integrates the fusion of rich contextual information from 2D images with the geometric detail of 3D point clouds, yielding a comprehensive and resilient feature representation. Furthermore, we introduce an innovative optimization function based on contrastive learning, which enforces geometric consistency and significantly improves the model's robustness to noise and partial observations. We evaluated CMHANet on the 3DMatch and the challenging 3DLoMatch datasets. \rev{Additionally, zero-shot evaluations on the TUM RGB-D SLAM dataset verify the model's generalization capability to unseen domains.} The experimental results demonstrate that our method achieves substantial improvements in both registration accuracy and overall robustness, outperforming current techniques. We also release our code in \href{https://github.com/DongXu-Zhang/CMHANet}{https://github.com/DongXu-Zhang/CMHANet}.

Dongxu Zhang, Jihua Zhu, Shiqi Li et al.

Point cloud registration (PCR) is a fundamental task in 3D vision and provides essential support for applications such as autonomous driving, robotics, and environmental modeling. Despite its widespread use, existing methods often fail when facing real-world challenges like heavy noise, significant occlusions, and large-scale transformations. These limitations frequently result in compromised registration accuracy and insufficient robustness in complex environments. In this paper, we propose IGASA as a novel registration framework constructed upon a Hierarchical Pyramid Architecture (HPA) designed for robust multi-scale feature extraction and fusion. The framework integrates two pivotal components consisting of the Hierarchical Cross-Layer Attention (HCLA) module and the Iterative Geometry-Aware Refinement (IGAR) module. The HCLA module utilizes skip attention mechanisms to align multi-resolution features and enhance local geometric consistency. Simultaneously, the IGAR module is designed for the fine matching phase by leveraging reliable correspondences established during coarse matching. This synergistic integration within the architecture allows IGASA to adapt effectively to diverse point cloud structures and intricate transformations. We evaluate the performance of IGASA on four widely recognized benchmark datasets including 3D(Lo)Match, KITTI, and nuScenes. Our extensive experiments consistently demonstrate that IGASA significantly surpasses state-of-the-art methods and achieves notable improvements in registration accuracy. This work provides a robust foundation for advancing point cloud registration techniques while offering valuable insights for practical 3D vision applications. The code for IGASA is available in \href{https://github.com/DongXu-Zhang/IGASA}{https://github.com/DongXu-Zhang/IGASA}.

Qirui Wang, Qi Guo, Yiding Sun et al.

Personalized text-to-image generation lets users fine-tune diffusion models into repositories of concept-specific checkpoints, but serving these repositories efficiently is difficult for two reasons: natural-language requests are often ambiguous and can be misrouted to visually similar checkpoints, and standard post-training quantization can distort the fragile representations that encode personalized concepts. We present PersonalQ, a unified framework that connects checkpoint selection and quantization through a shared signal -- the checkpoint's trigger token. Check-in performs intent-aligned selection by combining intent-aware hybrid retrieval with LLM-based reranking over checkpoint context and asks a brief clarification question only when multiple intents remain plausible; it then rewrites the prompt by inserting the selected checkpoint's canonical trigger. Complementing this, Trigger-Aware Quantization (TAQ) applies trigger-aware mixed precision in cross-attention, preserving trigger-conditioned key/value rows (and their attention weights) while aggressively quantizing the remaining pathways for memory-efficient inference. Experiments show that PersonalQ improves intent alignment over retrieval and reranking baselines, while TAQ consistently offers a stronger compression-quality trade-off than prior diffusion PTQ methods, enabling scalable serving of personalized checkpoints without sacrificing fidelity.

Dongxu Zhang, Yiding Sun, Cheng Tan et al.

While Chain-of-Thought (CoT) reasoning significantly enhances the performance of Multimodal Large Language Models (MLLMs), its autoregressive nature incurs prohibitive latency constraints. Current efforts to mitigate this via token compression often fail by blindly applying text-centric metrics to multimodal contexts. We identify a critical failure mode termed Visual Amnesia, where linguistically redundant tokens are erroneously pruned, leading to hallucinations. To address this, we introduce V-Skip that reformulates token pruning as a Visual-Anchored Information Bottleneck (VA-IB) optimization problem. V-Skip employs a dual-path gating mechanism that weighs token importance through both linguistic surprisal and cross-modal attention flow, effectively rescuing visually salient anchors. Extensive experiments on Qwen2-VL and Llama-3.2 families demonstrate that V-Skip achieves a $2.9\times$ speedup with negligible accuracy loss. Specifically, it preserves fine-grained visual details, outperforming other baselines over 30\% on the DocVQA.

Yankai Wang, Yiding Sun, Qirui Wang et al.

Understanding spatial dynamics and semantics in point cloud is fundamental for comprehensive 3D comprehension. While reinforcement learning algorithms such as Group Relative Policy Optimization (GRPO) have recently achieved remarkable breakthroughs in large language models by incentivizing reasoning capabilities through strategic reward design, their potential remains largely unexplored in the 3D perception domain. This naturally raises a pivotal question: Can RL-based methods effectively empower 3D point cloud fine-tuning? In this paper, we propose PointRFT, the first reinforcement fine-tuning paradigm tailored specifically for point cloud representation learning. We select three prevalent 3D foundation models and devise specialized accuracy reward and dispersion reward functions to stabilize training and mitigate distribution shifts. Through comprehensive few-shot classification experiments comparing distinct training paradigms, we demonstrate that PointRFT consistently outperforms vanilla supervised fine-tuning (SFT) across diverse benchmarks. Furthermore, when organically integrated into a hybrid Pretraining-SFT-RFT paradigm, the representational capacity of point cloud foundation models is substantially unleashed, achieving state-of-the-art performance particularly under data-scarce scenarios.

Qixian Huang, Hongqiang Lin, Tong Fu et al.

Reasoning over tabular data is a crucial capability for tasks like question answering and fact verification, as it requires models to comprehend both free-form questions and semi-structured tables. However, while methods like Chain-of-Thought (CoT) introduce reasoning chains, purely symbolic methodes are inherently limited by their blindness to holistic visual patterns. To address this, we propose the Coarse-to-Fine Multimodal Synthesis framework (CFMS), a novel two-stage paradigm that hierarchically decouples high-level visual perception from granular symbolic reasoning. In the Coarse Stage, CFMS leverages the Multimodal Large Language Models (MLLMs) to perform a one-time synthesis of a multi-perspective knowledge tuple. This tuple subsequently serves as a dynamic reasoning map to guide the fine stage, where a symbolic engine executes a targeted and efficient sequence of iterative operations over the table. Extensive experiments on the WikiTQ and TabFact benchmarks demonstrate that CFMS achieves competitive accuracy. The framework exhibits particular robustness when handling large tables and when instantiated with smaller backbone models, validating its effectiveness and generalizability.

Hongqiang Lin, Zhenghui Fu, Weihao Tang et al.

Offline reinforcement learning (RL) enables data-efficient and safe policy learning without online exploration, but its performance often degrades under distribution shift. The learned policy may visit out-of-distribution state-action pairs where value estimates and learned dynamics are unreliable. To address policy-induced extrapolation and transition uncertainty in a unified framework, we formulate offline RL as robust policy optimization, treating the transition kernel as a decision variable within an uncertainty set and optimizing the policy against the worst-case dynamics. We propose Robust Regularized Policy Iteration (RRPI), which replaces the intractable max-min bilevel objective with a tractable KL-regularized surrogate and derives an efficient policy iteration procedure based on a robust regularized Bellman operator. We provide theoretical guarantees by showing that the proposed operator is a $γ$-contraction and that iteratively updating the surrogate yields monotonic improvement of the original robust objective with convergence. Experiments on D4RL benchmarks demonstrate that RRPI achieves strong average performance, outperforming recent baselines including percentile-based methods such as PMDB on the majority of environments while remaining competitive on the rest. Moreover, RRPI exhibits robust behavior. The learned $Q$-values decrease in regions with higher epistemic uncertainty, suggesting that the resulting policy avoids unreliable out-of-distribution actions under transition uncertainty.

Jinhang Xu, Qiyuan Zhu, Yujun Wu et al.

LLM-powered multi-agent systems can now automate the full research pipeline from ideation to paper writing, but a fundamental question remains: automation for whom? Researchers operate under different resource configurations, hold different methodological preferences, and target different output formats. A system that produces uniform outputs regardless of these differences will systematically under-serve every individual user, making personalization a precondition for research automation to be genuinely usable. However, achieving it requires three capabilities that current systems lack: accumulating reusable procedural knowledge across projects, retaining user-specific experience across sessions, and internalizing implicit preferences that resist explicit formalization. We propose NanoResearch, a multi-agent framework that addresses these gaps through tri-level co-evolution. A skill bank distills recurring operations into compact procedural rules reusable across projects. A memory module maintains user- and project-specific experience that grounds planning decisions in each user's research history. A label-free policy learning converts free-form feedback into persistent parameter updates of the planner, reshaping subsequent coordination. These three layers co-evolve: reliable skills produce richer memory, richer memory informs better planning, and preference internalization continuously realigns the loop to each user. Extensive experiments demonstrate that NanoResearch delivers substantial gains over state-of-the-art AI research systems, and progressively refines itself to produce better research at lower cost over successive cycles.

Hongqiang Lin, Dongxu Zhang, Yiding Sun et al.

A fundamental challenge in model-based offline reinforcement learning (RL) lies in the trade-off between generalization and robustness against exploitation errors in out-of-distribution (OOD) regions. While OOD samples may capture valid underlying physical dynamics, they also introduce the risk of model exploitation. Existing methods typically address this risk through excessive pessimistic regularization, which ensures robustness but often sacrifices generalization. To overcome this limitation, we propose Posterior Sampling-based Policy Optimization (PSPO), which formulates dynamics modeling as a Bayesian inference process to derive a posterior that explicitly quantifies model fidelity. Through the integration of posterior sampling and constrained policy optimization, our method leverages dynamics-consistent OOD transitions for generalization while ensuring robustness against model exploitation. Theoretically, we formulate Q-value estimation under posterior sampling as a stochastic approximation problem and establish its convergence. We decompose policy optimization into a sequence of constrained subproblems, demonstrating that solving these subproblems guarantees monotonic improvement until convergence. Experiments on standard benchmarks validate that PSPO achieves superior performance compared to state-of-the-art baselines.

Yujun Wu, Dongxu Zhang, Xinchen Li et al.

Existing research infrastructure is fundamentally document-centric, providing citation links between papers but lacking explicit representations of methodological evolution. In particular, it does not capture the structured relationships that explain how and why research methods emerge, adapt, and build upon one another. With the rise of AI-driven research agents as a new class of consumers of scientific knowledge, this limitation becomes increasingly consequential, as such agents cannot reliably reconstruct method evolution topologies from unstructured text. We introduce Intern-Atlas, a methodological evolution graph that automatically identifies method-level entities, infers lineage relationships among methodologies, and captures the bottlenecks that drive transitions between successive innovations. Built from 1,030,314 papers spanning AI conferences, journals, and arXiv preprints, the resulting graph comprises 9,410,201 semantically typed edges, each grounded in verbatim source evidence, forming a queryable causal network of methodological development. To operationalize this structure, we further propose a self-guided temporal tree search algorithm for constructing evolution chains that trace the progression of methods over time. We evaluate the quality of the resulting graph against expert-curated ground-truth evolution chains and observe strong alignment. In addition, we demonstrate that Intern-Atlas enables downstream applications in idea evaluation and automated idea generation. We position methodological evolution graphs as a foundational data layer for the emerging automated scientific discovery.

Jiekai Wu, Rong Fu, Chuangqi Li et al.

Remote sensing segmentation in real deployment is inherently continual: new semantic categories emerge, and acquisition conditions shift across seasons, cities, and sensors. Despite recent progress, many incremental approaches still treat training steps as isolated updates, which leaves representation drift and forgetting insufficiently controlled. We present ProtoFlow, a time-aware prototype dynamics framework that models class prototypes as trajectories and learns their evolution with an explicit temporal vector field. By jointly enforcing low-curvature motion and inter-class separation, ProtoFlow stabilizes prototype geometry throughout incremental learning. Experiments on standard class- and domain-incremental remote sensing benchmarks show consistent gains over strong baselines, including up to 1.5-2.0 points improvement in mIoUall, together with reduced forgetting. These results suggest that explicitly modeling temporal prototype evolution is a practical and interpretable strategy for robust continual remote sensing segmentation.

Dongxu Zhang, Ning Yang, Jihua Zhu et al.

Chain-of-Thought (CoT) prompting has significantly advanced the reasoning capabilities of Large Language Models (LLMs), yet the reliability of these reasoning chains remains a critical challenge. A widely held "cascading failure" hypothesis suggests that errors are most detrimental when they occur early in the reasoning process. This paper challenges that assumption through systematic error-injection experiments, revealing a counter-intuitive phenomenon we term "Late-Stage Fragility": errors introduced in the later stages of a CoT chain are significantly more likely to corrupt the final answer than identical errors made at the beginning. To address this specific vulnerability, we introduce the Adaptive Self-Correction Chain-of-Thought (ASCoT) method. ASCoT employs a modular pipeline in which an Adaptive Verification Manager (AVM) operates first, followed by the Multi-Perspective Self-Correction Engine (MSCE). The AVM leverages a Positional Impact Score function I(k) that assigns different weights based on the position within the reasoning chains, addressing the Late-Stage Fragility issue by identifying and prioritizing high-risk, late-stage steps. Once these critical steps are identified, the MSCE applies robust, dual-path correction specifically to the failure parts. Extensive experiments on benchmarks such as GSM8K and MATH demonstrate that ASCoT achieves outstanding accuracy, outperforming strong baselines, including standard CoT. Our work underscores the importance of diagnosing specific failure modes in LLM reasoning and advocates for a shift from uniform verification strategies to adaptive, vulnerability-aware correction mechanisms.

Shib Sankar Dasgupta, Michael Boratko, Dongxu Zhang et al.

Geometric embeddings have recently received attention for their natural ability to represent transitive asymmetric relations via containment. Box embeddings, where objects are represented by n-dimensional hyperrectangles, are a particularly promising example of such an embedding as they are closed under intersection and their volume can be calculated easily, allowing them to naturally represent calibrated probability distributions. The benefits of geometric embeddings also introduce a problem of local identifiability, however, where whole neighborhoods of parameters result in equivalent loss which impedes learning. Prior work addressed some of these issues by using an approximation to Gaussian convolution over the box parameters, however, this intersection operation also increases the sparsity of the gradient. In this work, we model the box parameters with min and max Gumbel distributions, which were chosen such that space is still closed under the operation of the intersection. The calculation of the expected intersection volume involves all parameters, and we demonstrate experimentally that this drastically improves the ability of such models to learn.

Dongxu Zhang, Subhabrata Mukherjee, Colin Lockard et al.

In this paper, we consider advancing web-scale knowledge extraction and alignment by integrating OpenIE extractions in the form of (subject, predicate, object) triples with Knowledge Bases (KB). Traditional techniques from universal schema and from schema mapping fall in two extremes: either they perform instance-level inference relying on embedding for (subject, object) pairs, thus cannot handle pairs absent in any existing triples; or they perform predicate-level mapping and completely ignore background evidence from individual entities, thus cannot achieve satisfying quality. We propose OpenKI to handle sparsity of OpenIE extractions by performing instance-level inference: for each entity, we encode the rich information in its neighborhood in both KB and OpenIE extractions, and leverage this information in relation inference by exploring different methods of aggregation and attention. In order to handle unseen entities, our model is designed without creating entity-specific parameters. Extensive experiments show that this method not only significantly improves state-of-the-art for conventional OpenIE extractions like ReVerb, but also boosts the performance on OpenIE from semi-structured data, where new entity pairs are abundant and data are fairly sparse.

Amirmohammad Rooshenas, Dongxu Zhang, Gopal Sharma et al.

In structured output prediction tasks, labeling ground-truth training output is often expensive. However, for many tasks, even when the true output is unknown, we can evaluate predictions using a scalar reward function, which may be easily assembled from human knowledge or non-differentiable pipelines. But searching through the entire output space to find the best output with respect to this reward function is typically intractable. In this paper, we instead use efficient truncated randomized search in this reward function to train structured prediction energy networks (SPENs), which provide efficient test-time inference using gradient-based search on a smooth, learned representation of the score landscape, and have previously yielded state-of-the-art results in structured prediction. In particular, this truncated randomized search in the reward function yields previously unknown local improvements, providing effective supervision to SPENs, avoiding their traditional need for labeled training data.

Dongxu Zhang, Zhichao Yang

In this technique report, we aim to mitigate the overfitting problem of natural language by applying data augmentation methods. Specifically, we attempt several types of noise to perturb the input word embedding, such as Gaussian noise, Bernoulli noise, and adversarial noise, etc. We also apply several constraints on different types of noise. By implementing these proposed data augmentation methods, the baseline models can gain improvements on several sentence classification tasks.

Dongxu Zhang, Tianyi Luo, Dong Wang et al.

Latent Dirichlet Allocation (LDA) is a three-level hierarchical Bayesian model for topic inference. In spite of its great success, inferring the latent topic distribution with LDA is time-consuming. Motivated by the transfer learning approach proposed by~\newcite{hinton2015distilling}, we present a novel method that uses LDA to supervise the training of a deep neural network (DNN), so that the DNN can approximate the costly LDA inference with less computation. Our experiments on a document classification task show that a simple DNN can learn the LDA behavior pretty well, while the inference is speeded up tens or hundreds of times.

Dongxu Zhang, Dong Wang

Deep learning has gained much success in sentence-level relation classification. For example, convolutional neural networks (CNN) have delivered competitive performance without much effort on feature engineering as the conventional pattern-based methods. Thus a lot of works have been produced based on CNN structures. However, a key issue that has not been well addressed by the CNN-based method is the lack of capability to learn temporal features, especially long-distance dependency between nominal pairs. In this paper, we propose a simple framework based on recurrent neural networks (RNN) and compare it with CNN-based model. To show the limitation of popular used SemEval-2010 Task 8 dataset, we introduce another dataset refined from MIMLRE(Angeli et al., 2014). Experiments on two different datasets strongly indicates that the RNN-based model can deliver better performance on relation classification, and it is particularly capable of learning long-distance relation patterns. This makes it suitable for real-world applications where complicated expressions are often involved.