arXiv subjects

Can Yang

Publications and source records attributed to Can Yang.

At least 19 recordsLinked to original sources

arXiv2026

Spatial Transcriptomics-Guided Alignment Enhances Molecular Profiling in Pathology Foundation Model

Comprehensive molecular profiling is essential for modern precision oncology but remains hindered by prohibitive costs, specimen exhaustion, and protracted turnaround times. While pathology foundation models (PFMs) have demonstrated potential for inferring molecular phenotypes from routine hematoxylin and eosin (H&E) whole-slide images (WSIs), current architectures primarily rely on vision-centric self-supervised learning or vision-language alignment, lacking the spatially resolved molecular supervision required to connect subtle morphological features with underlying genomic alterations. Spatial transcriptomics (ST) emerges as a transformative technology that enables transcriptomic quantification within intact tissue sections, thereby preserving the precise spatial link between histology and molecular profiles. In this study, we present a Spatial Transcriptomics-guided Alignment framework for Molecular Profiling (STAMP), which endows PFMs with intrinsic molecular awareness. To support this paradigm, we curated HumanST-1k, a human ST dataset spanning diverse anatomical organs and sequencing platforms. This atlas yields 1.8 million pairs of H&E patches and corresponding transcriptomic profiles, providing a corpus that links histological structures with their molecular states. To mitigate the technical noise inherent to raw transcriptomics, STAMP applies a pathway-informed alignment strategy that aggregates transcriptomic data into biologically functional pathways, which are subsequently integrated into PFMs via parameter-efficient fine-tuning. This alignment enriches the representation space of PFMs and unlocks their capacity to resolve sub-visual molecular signatures. The clinical utility of these augmented representations was validated through a multi-tier evaluation framework.

cs.LG↗

arXiv2026

A Decade-Scale Benchmark Evaluating LLMs' Clinical Practice Guidelines Detection and Adherence in Multi-turn Conversations

Clinical practice guidelines (CPGs) play a pivotal role in ensuring evidence-based decision-making and improving patient outcomes. While Large Language Models (LLMs) are increasingly deployed in healthcare scenarios, it is unclear to which extend LLMs could identify and adhere to CPGs during conversations. To address this gap, we introduce CPGBench, an automated framework benchmarking the clinical guideline detection and adherence capabilities of LLMs in multi-turn conversations. We collect 3,418 CPG documents from 9 countries/regions and 2 international organizations published in the last decade spanning across 24 specialties. From these documents, we extract 32,155 clinical recommendations with corresponding publication institute, date, country, specialty, recommendation strength, evidence level, etc. One multi-turn conversation is generated for each recommendation accordingly to evaluate the detection and adherence capabilities of 8 leading LLMs. We find that the 71.1%-89.6% recommendations can be correctly detected, while only 3.6%-29.7% corresponding titles can be correctly referenced, revealing the gap between knowing the guideline contents and where they come from. The adherence rates range from 21.8% to 63.2% in different models, indicating a large gap between knowing the guidelines and being able to apply them. To confirm the validity of our automatic analysis, we further conduct a comprehensive human evaluation involving 56 clinicians from different specialties. To our knowledge, CPGBench is the first benchmark systematically revealing which clinical recommendations LLMs fail to detect or adhere to during conversations. Given that each clinical recommendation may affect a large population and that clinical applications are inherently safety critical, addressing these gaps is crucial for the safe and responsible deployment of LLMs in real world clinical practice.

cs.CL↗

arXiv2026

Progressive Residual Warmup for Language Model Pretraining

Transformer architectures serve as the backbone for most modern Large Language Models, therefore their pretraining stability and convergence speed are of central concern. Motivated by the logical dependency of sequentially stacked layers, we propose Progressive Residual Warmup (ProRes) for language model pretraining. ProRes implements an "early layer learns first" philosophy by multiplying each layer's residual with a scalar that gradually warms up from 0 to 1, with deeper layers taking longer warmup steps. In this way, deeper layers wait for early layers to settle into a more stable regime before contributing to learning. We demonstrate the effectiveness of ProRes through pretraining experiments across various model scales, as well as normalization and initialization schemes. Comprehensive analysis shows that ProRes not only stabilizes pretraining but also introduces a unique optimization trajectory, leading to faster convergence, stronger generalization and better downstream performance. Our code is available at https://github.com/dandingsky/ProRes.

cs.CL↗

arXiv2026

SyncTrack: Rhythmic Stability and Synchronization in Multi-Track Music Generation

Multi-track music generation has garnered significant research interest due to its precise mixing and remixing capabilities. However, existing models often overlook essential attributes such as rhythmic stability and synchronization, leading to a focus on differences between tracks rather than their inherent properties. In this paper, we introduce SyncTrack, a synchronous multi-track waveform music generation model designed to capture the unique characteristics of multi-track music. SyncTrack features a novel architecture that includes track-shared modules to establish a common rhythm across all tracks and track-specific modules to accommodate diverse timbres and pitch ranges. Each track-shared module employs two cross-track attention mechanisms to synchronize rhythmic information, while each track-specific module utilizes learnable instrument priors to better represent timbre and other unique features. Additionally, we enhance the evaluation of multi-track music quality by introducing rhythmic consistency through three novel metrics: Inner-track Rhythmic Stability (IRS), Cross-track Beat Synchronization (CBS), and Cross-track Beat Dispersion (CBD). Experiments demonstrate that SyncTrack significantly improves the multi-track music quality by enhancing rhythmic consistency.

cs.SD↗

arXiv2026

A Deployment-Friendly Foundational Framework for Efficient Computational Pathology

Pathology foundation models (PFMs) generalize well across computational pathology tasks but remain costly for gigapixel whole-slide image analysis. Here, we present LitePath, a deployment-friendly framework that addresses model over-parameterization and patch-level redundancy. LitePath combines LiteFM, a compact model distilled from Virchow2, H-Optimus-1 and UNI2 using 190 million patches, with the Adaptive Patch Selector for task-specific patch selection. Compared with Virchow2, LitePath uses 28x fewer parameters and 403.5x fewer FLOPs. On an NVIDIA Jetson Orin Nano Super, it processes 208 slides per hour, 104.5x faster than Virchow2, and consumes 0.36 kWh per 3,000 slides, 171x less energy than Virchow2 on an RTX 3090 GPU. We evaluated LitePath on 45 multicenter cohorts across four organs and 33 tasks, comprising 37 classification and 8 survival cohorts, including 33 internal, 10 external and 2 prospective cohorts, with 17,837 slides from 9,977 patients disjoint from the pretraining data. Among 22 PFMs, LitePath achieved the best average rank (6.56 vs. 6.58 for Virchow2), retained 99.71% of Virchow2's Macro-AUC across classification cohorts, and improved mean C-index by 2.14 percentage points across survival cohorts (71.91% vs. 69.77%). We further introduce the Deployability Score (D-Score), a weighted geometric mean of normalized task performance and FLOPs. LitePath achieved the highest D-Score (0.8455), outperforming H0-mini (0.7723) and Virchow2 (0.7297). In a randomized paired crossover study of four pathologists and 120 cases, LitePath increased diagnostic accuracy by 4.1-15.8 percentage points and reduced diagnostic time by 10.9-14.2%. These results demonstrate rapid, cost-effective and energy-efficient pathology image analysis on accessible hardware while maintaining competitive performance.

cs.CV↗

arXiv2026

Composition-RL: Compose Your Verifiable Prompts for Reinforcement Learning of Large Language Models

Large-scale verifiable prompts underpin the success of Reinforcement Learning with Verifiable Rewards (RLVR), but they contain many uninformative examples and are costly to expand further. Recent studies focus on better exploiting limited training data by prioritizing hard prompts whose rollout pass rate is 0. However, easy prompts with a pass rate of 1 also become increasingly prevalent as training progresses, thereby reducing the effective data size. To mitigate this, we propose Composition-RL, a simple yet useful approach for better utilizing limited verifiable prompts targeting pass-rate-1 prompts. More specifically, Composition-RL automatically composes multiple problems into a new verifiable question and uses these compositional prompts for RL training. Extensive experiments across model sizes from 4B to 30B show that Composition-RL consistently improves reasoning capability over RL trained on the original dataset. Performance can be further boosted with a curriculum variant of Composition-RL that gradually increases compositional depth over training. Additionally, Composition-RL enables more effective cross-domain RL by composing prompts drawn from different domains. Codes, datasets, and models are available at https://github.com/XinXU-USTC/Composition-RL.

cs.CL↗

arXiv2025

PEGNet: A Physics-Embedded Graph Network for Long-Term Stable Multiphysics Simulation

Accurate and efficient simulations of physical phenomena governed by partial differential equations (PDEs) are important for scientific and engineering progress. While traditional numerical solvers are powerful, they are often computationally expensive. Recently, data-driven methods have emerged as alternatives, but they frequently suffer from error accumulation and limited physical consistency, especially in multiphysics and complex geometries. To address these challenges, we propose PEGNet, a Physics-Embedded Graph Network that incorporates PDE-guided message passing to redesign the graph neural network architecture. By embedding key PDE dynamics like convection, viscosity, and diffusion into distinct message functions, the model naturally integrates physical constraints into its forward propagation, producing more stable and physically consistent solutions. Additionally, a hierarchical architecture is employed to capture multi-scale features, and physical regularization is integrated into the loss function to further enforce adherence to governing physics. We evaluated PEGNet on benchmarks, including custom datasets for respiratory airflow and drug delivery, showing significant improvements in long-term prediction accuracy and physical consistency over existing methods. Our code is available at https://github.com/Yanghuoshan/PEGNet.

cs.LG↗

arXiv2025

StruSR: Structure-Aware Symbolic Regression with Physics-Informed Taylor Guidance

Symbolic regression aims to find interpretable analytical expressions by searching over mathematical formula spaces to capture underlying system behavior, particularly in scientific modeling governed by physical laws. However, traditional methods lack mechanisms for extracting structured physical priors from time series observations, making it difficult to capture symbolic expressions that reflect the system's global behavior. In this work, we propose a structure-aware symbolic regression framework, called StruSR, that leverages trained Physics-Informed Neural Networks (PINNs) to extract locally structured physical priors from time series data. By performing local Taylor expansions on the outputs of the trained PINN, we obtain derivative-based structural information to guide symbolic expression evolution. To assess the importance of expression components, we introduce a masking-based attribution mechanism that quantifies each subtree's contribution to structural alignment and physical residual reduction. These sensitivity scores steer mutation and crossover operations within genetic programming, preserving substructures with high physical or structural significance while selectively modifying less informative components. A hybrid fitness function jointly minimizes physics residuals and Taylor coefficient mismatch, ensuring consistency with both the governing equations and the local analytical behavior encoded by the PINN. Experiments on benchmark PDE systems demonstrate that StruSR improves convergence speed, structural fidelity, and expression interpretability compared to conventional baselines, offering a principled paradigm for physics-grounded symbolic discovery.

cs.LG↗

arXiv2025

Thinking-Free Policy Initialization Makes Distilled Reasoning Models More Effective and Efficient Reasoners

Reinforcement Learning with Verifiable Reward (RLVR) effectively solves complex tasks but demands extremely long context lengths during training, leading to substantial computational costs. While multi-stage training can partially mitigate this, starting with overly short contexts often causes irreversible performance degradation, ultimately failing to reduce overall training compute significantly. In this paper, we introduce **T**hinking-**F**ree **P**olicy **I**nitialization (**TFPI**), a simple yet effective adaptation to RLVR that bridges long Chain-of-Thought (CoT) distillation and standard RLVR. TFPI employs a simple *ThinkFree* operation, explicitly discarding the thinking content via a direct * * append, to reduce token usage during inference. Training with *ThinkFree*-adapted inputs improves performance and lowers token consumption, even in the original slow-thinking mode. Extensive experiments across various benchmarks have shown that TFPI accelerates RL convergence, achieves a higher performance ceiling, and yields more token-efficient reasoning models without specialized rewards or complex training designs. With TFPI only, we train a 4B model to reach 89.0% accuracy on AIME24 and 65.5% on LiveCodeBench using less than 4K H20 hours.

cs.LG↗

arXiv2025

GPAS: Accelerating Convergence of LLM Pretraining via Gradient-Preserving Activation Scaling

Modern Large Language Models, such as the LLaMA, Qwen and DeepSeek series, predominantly adopt the Pre-LayerNorm (Pre-LN) Transformer architecture. While being stable during pretraining and scalable to large model sizes, Pre-LN suffers from an exponential growth in activation variance across layers, causing the shortcut to dominate over sub-layer outputs in the residual connection and limiting the learning capacity of deeper layers. To mitigate this issue, we propose Gradient-Preserving Activation Scaling (GPAS), a simple technique that can be used in combination with existing approaches. GPAS works by scaling down the intermediate activations while keeping their gradients unchanged. This leaves information in the activations intact, and avoids the gradient vanishing problem associated with gradient downscaling. Extensive experiments across various model sizes from 71M to 1B show that GPAS achieves consistent performance gains. Beyond enhancing Pre-LN Transformers, GPAS also shows promise in improving alternative architectures such as Sandwich-LN and DeepNorm, demonstrating its versatility and potential for improving training dynamics in a wide range of settings. Our code is available at https://github.com/dandingsky/GPAS.

cs.LG↗

arXiv2025

Double-Checker: Enhancing Reasoning of Slow-Thinking LLMs via Self-Critical Fine-Tuning

While slow-thinking large language models (LLMs) exhibit reflection-like reasoning, commonly referred to as the "aha moment:, their ability to generate informative critiques and refine prior solutions remains limited. In this paper, we introduce Double-Checker, a principled framework designed to enhance the reasoning capabilities of slow-thinking LLMs by fostering explicit self-critique and iterative refinement of their previous solutions. By fine-tuning on our curated 1,730 self-critical instances, Double-Checker empowers long-CoT LLMs to iteratively critique and refine their outputs during inference until they evaluate their solutions as correct under self-generated critiques. We validate the efficacy of Double-Checker across a comprehensive suite of reasoning benchmarks, demonstrating that iterative self-critique significantly enhances the reasoning capabilities of long-CoT LLMs. Notably, our Double-Checker increases the pass@1 performance on challenging AIME benchmarks from 4.4% to 18.2% compared to the original long-CoT LLMs. These results highlight a promising direction for developing more trustworthy and effective LLMs capable of structured self-critique. Our codes and data are available at https://github.com/XinXU-USTC/DoubleChecker

cs.CL↗

arXiv2025

HumanRAM: Feed-forward Human Reconstruction and Animation Model using Transformers

3D human reconstruction and animation are long-standing topics in computer graphics and vision. However, existing methods typically rely on sophisticated dense-view capture and/or time-consuming per-subject optimization procedures. To address these limitations, we propose HumanRAM, a novel feed-forward approach for generalizable human reconstruction and animation from monocular or sparse human images. Our approach integrates human reconstruction and animation into a unified framework by introducing explicit pose conditions, parameterized by a shared SMPL-X neural texture, into transformer-based large reconstruction models (LRM). Given monocular or sparse input images with associated camera parameters and SMPL-X poses, our model employs scalable transformers and a DPT-based decoder to synthesize realistic human renderings under novel viewpoints and novel poses. By leveraging the explicit pose conditions, our model simultaneously enables high-quality human reconstruction and high-fidelity pose-controlled animation. Experiments show that HumanRAM significantly surpasses previous methods in terms of reconstruction accuracy, animation fidelity, and generalization performance on real-world datasets. Video results are available at https://zju3dv.github.io/humanram/.

cs.GR↗

arXiv2025

Distilled Prompt Learning for Incomplete Multimodal Survival Prediction

The integration of multimodal data including pathology images and gene profiles is widely applied in precise survival prediction. Despite recent advances in multimodal survival models, collecting complete modalities for multimodal fusion still poses a significant challenge, hindering their application in clinical settings. Current approaches tackling incomplete modalities often fall short, as they typically compensate for only a limited part of the knowledge of missing modalities. To address this issue, we propose a Distilled Prompt Learning framework (DisPro) to utilize the strong robustness of Large Language Models (LLMs) to missing modalities, which employs two-stage prompting for compensation of comprehensive information for missing modalities. In the first stage, Unimodal Prompting (UniPro) distills the knowledge distribution of each modality, preparing for supplementing modality-specific knowledge of the missing modality in the subsequent stage. In the second stage, Multimodal Prompting (MultiPro) leverages available modalities as prompts for LLMs to infer the missing modality, which provides modality-common information. Simultaneously, the unimodal knowledge acquired in the first stage is injected into multimodal inference to compensate for the modality-specific knowledge of the missing modality. Extensive experiments covering various missing scenarios demonstrated the superiority of the proposed method. The code is available at https://github.com/Innse/DisPro.

cs.LG↗

arXiv2025

UGPhysics: A Comprehensive Benchmark for Undergraduate Physics Reasoning with Large Language Models

Large language models (LLMs) have demonstrated remarkable capabilities in solving complex reasoning tasks, particularly in mathematics. However, the domain of physics reasoning presents unique challenges that have received significantly less attention. Existing benchmarks often fall short in evaluating LLMs' abilities on the breadth and depth of undergraduate-level physics, underscoring the need for a comprehensive evaluation. To fill this gap, we introduce UGPhysics, a large-scale and comprehensive benchmark specifically designed to evaluate UnderGraduate-level Physics (UGPhysics) reasoning with LLMs. UGPhysics includes 5,520 undergraduate-level physics problems in both English and Chinese, covering 13 subjects with seven different answer types and four distinct physics reasoning skills, all rigorously screened for data leakage. Additionally, we develop a Model-Assistant Rule-based Judgment (MARJ) pipeline specifically tailored for assessing answer correctness of physics problems, ensuring accurate evaluation. Our evaluation of 31 leading LLMs shows that the highest overall accuracy, 49.8% (achieved by OpenAI-o1-mini), emphasizes the necessity for models with stronger physics reasoning skills, beyond math abilities. We hope UGPhysics, along with MARJ, will drive future advancements in AI for physics reasoning. Codes and data are available at https://github.com/YangLabHKUST/UGPhysics .

cs.CL↗

arXiv2025

The Exploration of Error Bounds in Classification with Noisy Labels

Numerous studies have shown that label noise can lead to poor generalization performance, negatively affecting classification accuracy. Therefore, understanding the effectiveness of classifiers trained using deep neural networks in the presence of noisy labels is of considerable practical significance. In this paper, we focus on the error bounds of excess risks for classification problems with noisy labels within deep learning frameworks. We derive error bounds for the excess risk, decomposing it into statistical error and approximation error. To handle statistical dependencies (e.g., mixing sequences), we employ an independent block construction to bound the error, leveraging techniques for dependent processes. For the approximation error, we establish these theoretical results to the vector-valued setting, where the output space consists of $K$-dimensional unit vectors. Finally, under the low-dimensional manifold hypothesis, we further refine the approximation error to mitigate the impact of high-dimensional input spaces.

cs.LG↗

arXiv2025

UGMathBench: A Diverse and Dynamic Benchmark for Undergraduate-Level Mathematical Reasoning with Large Language Models

Large Language Models (LLMs) have made significant strides in mathematical reasoning, underscoring the need for a comprehensive and fair evaluation of their capabilities. However, existing benchmarks often fall short, either lacking extensive coverage of undergraduate-level mathematical problems or probably suffering from test-set contamination. To address these issues, we introduce UGMathBench, a diverse and dynamic benchmark specifically designed for evaluating undergraduate-level mathematical reasoning with LLMs. UGMathBench comprises 5,062 problems across 16 subjects and 111 topics, featuring 10 distinct answer types. Each problem includes three randomized versions, with additional versions planned for release as leading open-source LLMs become saturated in UGMathBench. Furthermore, we propose two key metrics: effective accuracy (EAcc), which measures the percentage of correctly solved problems across all three versions, and reasoning gap ($\Delta$), which assesses reasoning robustness by calculating the difference between the average accuracy across all versions and EAcc. Our extensive evaluation of 23 leading LLMs reveals that the highest EAcc achieved is 56.3\% by OpenAI-o1-mini, with large $\Delta$ values observed across different models. This highlights the need for future research aimed at developing "large reasoning models" with high EAcc and $\Delta = 0$. We anticipate that the release of UGMathBench, along with its detailed evaluation codes, will serve as a valuable resource to advance the development of LLMs in solving mathematical problems. Codes and data are available at https://github.com/YangLabHKUST/UGMathBench

cs.CL↗

arXiv2024

Can LLMs Solve longer Math Word Problems Better?

Math Word Problems (MWPs) play a vital role in assessing the capabilities of Large Language Models (LLMs), yet current research primarily focuses on questions with concise contexts. The impact of longer contexts on mathematical reasoning remains under-explored. This study pioneers the investigation of Context Length Generalizability (CoLeG), which refers to the ability of LLMs to solve MWPs with extended narratives. We introduce Extended Grade-School Math (E-GSM), a collection of MWPs featuring lengthy narratives, and propose two novel metrics to evaluate the efficacy and resilience of LLMs in tackling these problems. Our analysis of existing zero-shot prompting techniques with proprietary LLMs along with open-source LLMs reveals a general deficiency in CoLeG. To alleviate these issues, we propose tailored approaches for different categories of LLMs. For proprietary LLMs, we introduce a new instructional prompt designed to mitigate the impact of long contexts. For open-source LLMs, we develop a novel auxiliary task for fine-tuning to enhance CoLeG. Our comprehensive results demonstrate the effectiveness of our proposed methods, showing improved performance on E-GSM. Additionally, we conduct an in-depth analysis to differentiate the effects of semantic understanding and reasoning efficacy, showing that our methods improves the latter. We also establish the generalizability of our methods across several other MWP benchmarks. Our findings highlight the limitations of current LLMs and offer practical solutions correspondingly, paving the way for further exploration of model generalizability and training methodologies.

cs.CL↗

arXiv2024

Can We Verify Step by Step for Incorrect Answer Detection?

Chain-of-Thought (CoT) prompting has marked a significant advancement in enhancing the reasoning capabilities of large language models (LLMs). Previous studies have developed various extensions of CoT, which focus primarily on enhancing end-task performance. In addition, there has been research on assessing the quality of reasoning chains in CoT. This raises an intriguing question: Is it possible to predict the accuracy of LLM outputs by scrutinizing the reasoning chains they generate? To answer this research question, we introduce a benchmark, R2PE, designed specifically to explore the relationship between reasoning chains and performance in various reasoning tasks spanning five different domains. This benchmark aims to measure the falsehood of the final output of LLMs based on the reasoning steps. To make full use of information in multiple reasoning chains, we propose the process discernibility score (PDS) framework that beats the answer-checking baseline by a large margin. Concretely, this resulted in an average of $5.1\%$ increase in the F1 score and $2.97\%$ improvement in AUC-PR across all 45 subsets within R2PE. We further demonstrate our PDS's efficacy in advancing open-domain QA accuracy.

cs.CL↗