arXiv subjects

Yun Li

Publications and source records attributed to Yun Li.

At least 73 records · Page 4Linked to original sources

arXiv2025

CellTypeAgent: Trustworthy cell type annotation with Large Language Models

Cell type annotation is a critical yet laborious step in single-cell RNA sequencing analysis. We present a trustworthy large language model (LLM)-agent, CellTypeAgent, which integrates LLMs with verification from relevant databases. CellTypeAgent achieves higher accuracy than existing methods while mitigating hallucinations. We evaluated CellTypeAgent across nine real datasets involving 303 cell types from 36 tissues. This combined approach holds promise for more efficient and reliable cell type annotation.

q-bio.GN↗

arXiv2025

Clickbait Detection via Large Language Models

Clickbait, which aims to induce users with some surprising and even thrilling headlines for increasing click-through rates, permeates almost all online content publishers, such as news portals and social media. Recently, Large Language Models (LLMs) have emerged as a powerful instrument and achieved tremendous success in a series of NLP downstream tasks. However, it is not yet known whether LLMs can be served as a high-quality clickbait detection system. In this paper, we analyze the performance of LLMs in the few-shot and zero-shot scenarios on several English and Chinese benchmark datasets. Experimental results show that LLMs cannot achieve the best results compared to the state-of-the-art deep and fine-tuning PLMs methods. Different from human intuition, the experiments demonstrated that LLMs cannot make satisfied clickbait detection just by the headlines.

cs.CL↗

arXiv2025

PolygonGNN: Representation Learning for Polygonal Geometries with Heterogeneous Visibility Graph

Polygon representation learning is essential for diverse applications, encompassing tasks such as shape coding, building pattern classification, and geographic question answering. While recent years have seen considerable advancements in this field, much of the focus has been on single polygons, overlooking the intricate inner- and inter-polygonal relationships inherent in multipolygons. To address this gap, our study introduces a comprehensive framework specifically designed for learning representations of polygonal geometries, particularly multipolygons. Central to our approach is the incorporation of a heterogeneous visibility graph, which seamlessly integrates both inner- and inter-polygonal relationships. To enhance computational efficiency and minimize graph redundancy, we implement a heterogeneous spanning tree sampling method. Additionally, we devise a rotation-translation invariant geometric representation, ensuring broader applicability across diverse scenarios. Finally, we introduce Multipolygon-GNN, a novel model tailored to leverage the spatial and semantic heterogeneity inherent in the visibility graph. Experiments on five real-world and synthetic datasets demonstrate its ability to capture informative representations for polygonal geometries. Code and data are available at \href{https://github.com/dyu62/PolyGNN}{$github.com/dyu62/PolyGNN$}.

cs.CV↗

arXiv2025

Model Predictive Building Climate Control for Mitigating Heat Pump Noise Pollution (Extended Version)

Noise pollution from heat pumps (HPs) has been an emerging concern to their broader adoption, especially in densely populated areas. This paper explores a model predictive control (MPC) approach for building climate control, aimed at minimizing the noise nuisance generated by HPs. By exploiting a piecewise linear approximation of HP noise patterns and assuming linear building thermal dynamics, the proposed design can be generalized to handle various HP acoustic patterns with mixed-integer linear programming (MILP). Additionally, two computationally efficient options for defining the noise cost function in the proposed MPC design are discussed. Numerical experiments on a high-fidelity building simulator are performed to demonstrate the viability and effectiveness of the proposed design. Simulation results show that the proposed approach can effectively reduce the noise pollution caused by HPs with negligible energy cost increase.

eess.SY↗

arXiv2025

Local Computation Algorithms for Knapsack: impossibility results, and how to avoid them

Local Computation Algorithms (LCA), as introduced by Rubinfeld, Tamir, Vardi, and Xie (2011), are a type of ultra-efficient algorithms which, given access to a (large) input for a given computational task, are required to provide fast query access to a consistent output solution, without maintaining a state between queries. This paradigm of computation in particular allows for hugely distributed algorithms, where independent instances of a given LCA provide consistent access to a common output solution. The past decade has seen a significant amount of work on LCAs, by and large focusing on graph problems. In this paper, we initiate the study of Local Computation Algorithms for perhaps the archetypal combinatorial optimization problem, Knapsack. We first establish strong impossibility results, ruling out the existence of any non-trivial LCA for Knapsack as several of its relaxations. We then show how equipping the LCA with additional access to the Knapsack instance, namely, weighted item sampling, allows one to circumvent these impossibility results, and obtain sublinear-time and query LCAs. Our positive result draws on a connection to the recent notion of reproducibility for learning algorithms (Impagliazzo, Lei, Pitassi, and Sorrell, 2022), a connection we believe to be of independent interest for the design of LCAs.

cs.DS↗

arXiv2025

MDocAgent: A Multi-Modal Multi-Agent Framework for Document Understanding

Document Question Answering (DocQA) is a very common task. Existing methods using Large Language Models (LLMs) or Large Vision Language Models (LVLMs) and Retrieval Augmented Generation (RAG) often prioritize information from a single modal, failing to effectively integrate textual and visual cues. These approaches struggle with complex multi-modal reasoning, limiting their performance on real-world documents. We present MDocAgent (A Multi-Modal Multi-Agent Framework for Document Understanding), a novel RAG and multi-agent framework that leverages both text and image. Our system employs five specialized agents: a general agent, a critical agent, a text agent, an image agent and a summarizing agent. These agents engage in multi-modal context retrieval, combining their individual insights to achieve a more comprehensive understanding of the document's content. This collaborative approach enables the system to synthesize information from both textual and visual components, leading to improved accuracy in question answering. Preliminary experiments on five benchmarks like MMLongBench, LongDocURL demonstrate the effectiveness of our MDocAgent, achieve an average improvement of 12.1% compared to current state-of-the-art method. This work contributes to the development of more robust and comprehensive DocQA systems capable of handling the complexities of real-world documents containing rich textual and visual information. Our data and code are available at https://github.com/aiming-lab/MDocAgent.

cs.LG↗

arXiv2025

Is LLMs Hallucination Usable? LLM-based Negative Reasoning for Fake News Detection

The questionable responses caused by knowledge hallucination may lead to LLMs' unstable ability in decision-making. However, it has never been investigated whether the LLMs' hallucination is possibly usable to generate negative reasoning for facilitating the detection of fake news. This study proposes a novel supervised self-reinforced reasoning rectification approach - SR$^3$ that yields both common reasonable reasoning and wrong understandings (negative reasoning) for news via LLMs reflection for semantic consistency learning. Upon that, we construct a negative reasoning-based news learning model called - \emph{NRFE}, which leverages positive or negative news-reasoning pairs for learning the semantic consistency between them. To avoid the impact of label-implicated reasoning, we deploy a student model - \emph{NRFE-D} that only takes news content as input to inspect the performance of our method by distilling the knowledge from \emph{NRFE}. The experimental results verified on three popular fake news datasets demonstrate the superiority of our method compared with three kinds of baselines including prompting on LLMs, fine-tuning on pre-trained SLMs, and other representative fake news detection methods.

cs.CL↗

arXiv2025

Better Process Supervision with Bi-directional Rewarding Signals

Process supervision, i.e., evaluating each step, is critical for complex large language model (LLM) reasoning and test-time searching with increased inference compute. Existing approaches, represented by process reward models (PRMs), primarily focus on rewarding signals up to the current step, exhibiting a one-directional nature and lacking a mechanism to model the distance to the final target. To address this problem, we draw inspiration from the A* algorithm, which states that an effective supervisory signal should simultaneously consider the incurred cost and the estimated cost for reaching the target. Building on this key insight, we introduce BiRM, a novel process supervision model that not only evaluates the correctness of previous steps but also models the probability of future success. We conduct extensive experiments on mathematical reasoning tasks and demonstrate that BiRM provides more precise evaluations of LLM reasoning steps, achieving an improvement of 3.1% on Gaokao2023 over PRM under the Best-of-N sampling method. Besides, in search-based strategies, BiRM provides more comprehensive guidance and outperforms ORM by 5.0% and PRM by 3.8% respectively on MATH-500.

cs.CL↗

arXiv2025

Ultrathin Ga$_2$O$_3$ Tunneling Contact for 2D Transition-metal Dichalcogenides Transistor

The development of two-dimensional (2D) transition metal dichalcogenides (TMDs) based transistors has been constrained by high contact resistance and inadequate current delivery, primarily stemming from metal-induced gap states and Fermi level pinning. Research into addressing these challenges is essential for the advancing 2D transistors from laboratory experiments to industrial-grade production. In this work, we present amorphous Ga$_2$O$_3$ as a novel tunneling contact layer for multilayer WS2-based field-effect transistors (FETs) to enhance electrical performance. The addition of this innovative tunneling layer avoid Schottky barrier forming while finally change into a tunneling barrier with the barrier height to just 3.7 meV, near-ideal ohmic contacts. This approach effectively reduces contact resistance to only 2.38 k$Ω\,μ$m and specific contact resistivity as low as $3 \times 10^{-5}$ $Ω$cm$^2$. A record-high electron mobility of 296 cm$^2$ V$^{-1}$ s$^{-1}$ and ON-OFF ratio over 106 are realized for WS$_2$ transistor at room temperature. Compared to other tunneling materials, ultrathin Ga$_2$O$_3$ layer offers scalability, cost-efficient production and broad substrate compatibility, making it well-suited for seamless integration with industrial wafer-scale electronics. A robust device performance remains highly consistent in a large-scale transistor array fabricated on $1.5\times 1.5$ cm$^2$ chips, with the average mobility closing to 200 cm$^2$ V$^{-1}$ s$^{-1}$. These findings establish a new benchmark for contact performance in 2D transistors and prove the potential of tunneling contact engineering in advancing high-performance, scalable 29 pelectronics with promising applications in quantum computing and communication.

cond-mat.mes-hall↗

arXiv2025

Sce2DriveX: A Generalized MLLM Framework for Scene-to-Drive Learning

End-to-end autonomous driving, which directly maps raw sensor inputs to low-level vehicle controls, is an important part of Embodied AI. Despite successes in applying Multimodal Large Language Models (MLLMs) for high-level traffic scene semantic understanding, it remains challenging to effectively translate these conceptual semantics understandings into low-level motion control commands and achieve generalization and consensus in cross-scene driving. We introduce Sce2DriveX, a human-like driving chain-of-thought (CoT) reasoning MLLM framework. Sce2DriveX utilizes multimodal joint learning from local scene videos and global BEV maps to deeply understand long-range spatiotemporal relationships and road topology, enhancing its comprehensive perception and reasoning capabilities in 3D dynamic/static scenes and achieving driving generalization across scenes. Building on this, it reconstructs the implicit cognitive chain inherent in human driving, covering scene understanding, meta-action reasoning, behavior interpretation analysis, motion planning and control, thereby further bridging the gap between autonomous driving and human thought processes. To elevate model performance, we have developed the first extensive Visual Question Answering (VQA) driving instruction dataset tailored for 3D spatial understanding and long-axis task reasoning. Extensive experiments demonstrate that Sce2DriveX achieves state-of-the-art performance from scene understanding to end-to-end driving, as well as robust generalization on the CARLA Bench2Drive benchmark.

cs.CV↗

arXiv2025

PEARL: Parallel Speculative Decoding with Adaptive Draft Length

Speculative decoding (SD), where an extra draft model is employed to provide multiple draft tokens first, and then the original target model verifies these tokens in parallel, has shown great power for LLM inference acceleration. However, existing SD methods suffer from the mutual waiting problem, i.e., the target model gets stuck when the draft model is guessing tokens, and vice versa. This problem is directly incurred by the asynchronous execution of the draft model and the target model and is exacerbated due to the fixed draft length in speculative decoding. To address these challenges, we propose a conceptually simple, flexible, and general framework to boost speculative decoding, namely Parallel spEculative decoding with Adaptive dRaft Length (PEARL). Specifically, PEARL proposes pre-verify to verify the first draft token in advance during the drafting phase, and post-verify to generate more draft tokens during the verification phase. PEARL parallels the drafting phase and the verification phase via applying the two strategies, and achieves adaptive draft length for different scenarios, which effectively alleviates the mutual waiting problem. Experiments on various text generation benchmarks demonstrate the effectiveness of our PEARL, leading to a superior speed up performance up to 4.43$\times$ and 1.50$\times$, compared to auto-regressive decoding and vanilla speculative decoding, respectively. Our code is available at https://github.com/smart-lty/ParallelSpeculativeDecoding.

cs.CL↗

arXiv2025

On Data-Driven Robust Optimization With Multiple Uncertainty Subsets: Unified Uncertainty Set Representation and Mitigating Conservatism

Constructing uncertainty sets as unions of multiple subsets has emerged as an effective approach for creating compact and flexible uncertainty representations in data-driven robust optimization (RO). This paper focuses on two separate research questions. The first concerns the computational challenge in applying these uncertainty sets in RO-based predictive control. To address this, a monolithic mixed-integer representation of the uncertainty set is proposed to uniformly describe the union of multiple subsets, enabling the computation of the worst-case uncertainty scenario across all subsets within a single mixed-integer linear programming (MILP) problem. The second research question focuses on mitigating the conservatism of conventional RO formulations by leveraging the structure of the uncertainty set. To achieve this, a novel objective function is proposed to exploit the uncertainty set structure and integrate the existing RO and distributionally robust optimization (DRO) formulations, yielding less conservative solutions than conventional RO formulations while avoiding the high-dimensional continuous uncertainty distributions and incurring high computational burden typically associated with existing DRO formulations. Given the proposed formulations, numerically efficient computation methods based on column-and-constraint generation (CCG) are also developed. Extensive simulations across three case studies are performed to demonstrate the effectiveness of the proposed schemes.

math.OC↗

arXiv2025

Low-Contrast-Enhanced Contrastive Learning for Semi-Supervised Endoscopic Image Segmentation

The segmentation of endoscopic images plays a vital role in computer-aided diagnosis and treatment. The advancements in deep learning have led to the employment of numerous models for endoscopic tumor segmentation, achieving promising segmentation performance. Despite recent advancements, precise segmentation remains challenging due to limited annotations and the issue of low contrast. To address these issues, we propose a novel semi-supervised segmentation framework termed LoCo via low-contrast-enhanced contrastive learning (LCC). This innovative approach effectively harnesses the vast amounts of unlabeled data available for endoscopic image segmentation, improving both accuracy and robustness in the segmentation process. Specifically, LCC incorporates two advanced strategies to enhance the distinctiveness of low-contrast pixels: inter-class contrast enhancement (ICE) and boundary contrast enhancement (BCE), enabling models to segment low-contrast pixels among malignant tumors, benign tumors, and normal tissues. Additionally, a confidence-based dynamic filter (CDF) is designed for pseudo-label selection, enhancing the utilization of generated pseudo-labels for unlabeled data with a specific focus on minority classes. Extensive experiments conducted on two public datasets, as well as a large proprietary dataset collected over three years, demonstrate that LoCo achieves state-of-the-art results, significantly outperforming previous methods. The source code of LoCo is available at the URL of \href{https://github.com/AnoK3111/LoCo}{https://github.com/AnoK3111/LoCo}.

cs.CV↗

arXiv2025

Multimodal Clinical Trial Outcome Prediction with Large Language Models

The clinical trial is a pivotal and costly process, often spanning multiple years and requiring substantial financial resources. Therefore, the development of clinical trial outcome prediction models aims to exclude drugs likely to fail and holds the potential for significant cost savings. Recent data-driven attempts leverage deep learning methods to integrate multimodal data for predicting clinical trial outcomes. However, these approaches rely on manually designed modal-specific encoders, which limits both the extensibility to adapt new modalities and the ability to discern similar information patterns across different modalities. To address these issues, we propose a multimodal mixture-of-experts (LIFTED) approach for clinical trial outcome prediction. Specifically, LIFTED unifies different modality data by transforming them into natural language descriptions. Then, LIFTED constructs unified noise-resilient encoders to extract information from modal-specific language descriptions. Subsequently, a sparse Mixture-of-Experts framework is employed to further refine the representations, enabling LIFTED to identify similar information patterns across different modalities and extract more consistent representations from those patterns using the same expert model. Finally, a mixture-of-experts module is further employed to dynamically integrate different modality representations for prediction, which gives LIFTED the ability to automatically weigh different modalities and pay more attention to critical information. The experiments demonstrate that LIFTED significantly enhances performance in predicting clinical trial outcomes across all three phases compared to the best baseline, showcasing the effectiveness of our proposed key components.

cs.LG↗

arXiv2025

Exploring the Role of Explicit Temporal Modeling in Multimodal Large Language Models for Video Understanding

Applying Multimodal Large Language Models (MLLMs) to video understanding presents significant challenges due to the need to model temporal relations across frames. Existing approaches adopt either implicit temporal modeling, relying solely on the LLM decoder, or explicit temporal modeling, employing auxiliary temporal encoders. To investigate this debate between the two paradigms, we propose the Stackable Temporal Encoder (STE). STE enables flexible explicit temporal modeling with adjustable temporal receptive fields and token compression ratios. Using STE, we systematically compare implicit and explicit temporal modeling across dimensions such as overall performance, token compression effectiveness, and temporal-specific understanding. We also explore STE's design considerations and broader impacts as a plug-in module and in image modalities. Our findings emphasize the critical role of explicit temporal modeling, providing actionable insights to advance video MLLMs.

cs.CV↗

arXiv2024

VisionLLM-based Multimodal Fusion Network for Glottic Carcinoma Early Detection

The early detection of glottic carcinoma is critical for improving patient outcomes, as it enables timely intervention, preserves vocal function, and significantly reduces the risk of tumor progression and metastasis. However, the similarity in morphology between glottic carcinoma and vocal cord dysplasia results in suboptimal detection accuracy. To address this issue, we propose a vision large language model-based (VisionLLM-based) multimodal fusion network for glottic carcinoma detection, known as MMGC-Net. By integrating image and text modalities, multimodal models can capture complementary information, leading to more accurate and robust predictions. In this paper, we collect a private real glottic carcinoma dataset named SYSU1H from the First Affiliated Hospital of Sun Yat-sen University, with 5,799 image-text pairs. We leverage an image encoder and additional Q-Former to extract vision embeddings and the Large Language Model Meta AI (Llama3) to obtain text embeddings. These modalities are then integrated through a laryngeal feature fusion block, enabling a comprehensive integration of image and text features, thereby improving the glottic carcinoma identification performance. Extensive experiments on the SYSU1H dataset demonstrate that MMGC-Net can achieve state-of-the-art performance, which is superior to previous multimodal models.

cs.CV↗

arXiv2024

Cross-Lingual Text-Rich Visual Comprehension: An Information Theory Perspective

Recent Large Vision-Language Models (LVLMs) have shown promising reasoning capabilities on text-rich images from charts, tables, and documents. However, the abundant text within such images may increase the model's sensitivity to language. This raises the need to evaluate LVLM performance on cross-lingual text-rich visual inputs, where the language in the image differs from the language of the instructions. To address this, we introduce XT-VQA (Cross-Lingual Text-Rich Visual Question Answering), a benchmark designed to assess how LVLMs handle language inconsistency between image text and questions. XT-VQA integrates five existing text-rich VQA datasets and a newly collected dataset, XPaperQA, covering diverse scenarios that require faithful recognition and comprehension of visual information despite language inconsistency. Our evaluation of prominent LVLMs on XT-VQA reveals a significant drop in performance for cross-lingual scenarios, even for models with multilingual capabilities. A mutual information analysis suggests that this performance gap stems from cross-lingual questions failing to adequately activate relevant visual information. To mitigate this issue, we propose MVCL-MI (Maximization of Vision-Language Cross-Lingual Mutual Information), where a visual-text cross-lingual alignment is built by maximizing mutual information between the model's outputs and visual information. This is achieved by distilling knowledge from monolingual to cross-lingual settings through KL divergence minimization, where monolingual output logits serve as a teacher. Experimental results on the XT-VQA demonstrate that MVCL-MI effectively reduces the visual-text cross-lingual performance disparity while preserving the inherent capabilities of LVLMs, shedding new light on the potential practice for improving LVLMs. Codes are available at: https://github.com/Stardust-y/XTVQA.git

cs.CV↗

arXiv2024

Asymptotic limit of fully coupled multi-scale non-linear stochastic system: the non-autonomous approximation method

In this paper, we develop a novel argument, the non-autonomous approximation method, to seek the asymptotic limits of the fully coupled multi-scale McKean-Vlasov stochastic systems with irregular coefficients, which, as summarized in [3,Section 7], remains an open problem in the field. We provide an explicit characterization for the averaged limit of the non-linear stochastic system, where both the choice of the frozen equation and the definition of the averaged coefficients are more or less unexpected since new integral terms with respect to the measure variable appear. More importantly, in contrast with the classical theory of multi-scale systems which focuses on the averaged limit of the slow process, we propose a new perspective that the asymptotic behavior of the entire system is actually governed by the limit of the fast motion. By studying the long-time estimates of the solution of the Kolmogorov equation in Wasserstein space, we identify the limiting distribution of the fast motion of the non-linear system, which, to the best of our knowledge, is new even for the classical multi-scale Itô SDEs. Furthermore, rates of convergence are also obtained, which are rather sharp and depend only on the regularity of the coefficients with respect to the slow variable. The innovation of our argument is to transform the non-linear system into a sequence of linear but non-autonomous systems, which is rather simple insofar as it avoids to involve the mean-field type PDEs associated with non-linear stochastic system, and at the same time, it turns out to be quite effective as it enables us to show that the strong convergence in the averaging principle of the non-linear stochastic system follows directly from the weak convergence, which significantly simplified the proof.

math.PR↗