arXiv subjects

Yiwei Li

Publications and source records attributed to Yiwei Li.

At least 73 records · Page 4Linked to original sources

arXiv2025

Vision Foundation Models in Medical Image Analysis: Advances and Challenges

The rapid development of Vision Foundation Models (VFMs), particularly Vision Transformers (ViT) and Segment Anything Model (SAM), has sparked significant advances in the field of medical image analysis. These models have demonstrated exceptional capabilities in capturing long-range dependencies and achieving high generalization in segmentation tasks. However, adapting these large models to medical image analysis presents several challenges, including domain differences between medical and natural images, the need for efficient model adaptation strategies, and the limitations of small-scale medical datasets. This paper reviews the state-of-the-art research on the adaptation of VFMs to medical image segmentation, focusing on the challenges of domain adaptation, model compression, and federated learning. We discuss the latest developments in adapter-based improvements, knowledge distillation techniques, and multi-scale contextual feature modeling, and propose future directions to overcome these bottlenecks. Our analysis highlights the potential of VFMs, along with emerging methodologies such as federated learning and model compression, to revolutionize medical image analysis and enhance clinical applications. The goal of this work is to provide a comprehensive overview of current approaches and suggest key areas for future research that can drive the next wave of innovation in medical image segmentation.

eess.IV↗

arXiv2025

UniCBE: An Uniformity-driven Comparing Based Evaluation Framework with Unified Multi-Objective Optimization

Human preference plays a significant role in measuring large language models and guiding them to align with human values. Unfortunately, current comparing-based evaluation (CBE) methods typically focus on a single optimization objective, failing to effectively utilize scarce yet valuable preference signals. To address this, we delve into key factors that can enhance the accuracy, convergence, and scalability of CBE: suppressing sampling bias, balancing descending process of uncertainty, and mitigating updating uncertainty. Following the derived guidelines, we propose UniCBE, a unified uniformity-driven CBE framework which simultaneously optimize these core objectives by constructing and integrating three decoupled sampling probability matrices, each designed to ensure uniformity in specific aspects. We further ablate the optimal tuple sampling and preference aggregation strategies to achieve efficient CBE. On the AlpacaEval benchmark, UniCBE saves over 17% of evaluation budgets while achieving a Pearson correlation with ground truth exceeding 0.995, demonstrating excellent accuracy and convergence. In scenarios where new models are continuously introduced, UniCBE can even save over 50% of evaluation costs, highlighting its improved scalability.

cs.CL↗

arXiv2025

CogLM: Tracking Cognitive Development of Large Language Models

Piaget's Theory of Cognitive Development (PTC) posits that the development of cognitive levels forms the foundation for human learning across various abilities. As Large Language Models (LLMs) have recently shown remarkable abilities across a wide variety of tasks, we are curious about the cognitive levels of current LLMs: to what extent they have developed and how this development has been achieved. To this end, we construct a benchmark CogLM (Cognitive Ability Evaluation for Language Model) based on PTC to assess the cognitive levels of LLMs. CogLM comprises 1,220 questions spanning 10 cognitive abilities crafted by more than 20 human experts, providing a comprehensive testbed for the cognitive levels of LLMs. Through extensive experiments across multiple mainstream LLMs with CogLM, we find that: (1) In our testing framework, advanced LLMs (such as GPT-4) have demonstrated human-like cognitive abilities, comparable to those of a 20-year-old human. (2) The parameter size and optimization objective are two key factors affecting the cognitive levels of LLMs. (3) The performance on downstream tasks is positively correlated with the level of cognitive abilities. These findings fill the gap in research on the cognitive abilities of LLMs, tracing the development of LLMs from a cognitive perspective and guiding the future direction of their evolution.

cs.CL↗

arXiv2025

Make Every Penny Count: Difficulty-Adaptive Self-Consistency for Cost-Efficient Reasoning

Self-consistency (SC), a widely used decoding strategy for chain-of-thought reasoning, shows significant gains across various multi-step reasoning tasks but comes with a high cost due to multiple sampling with the preset size. Its variants, Adaptive self-consistency (ASC) and Early-stopping self-consistency (ESC), dynamically adjust the number of samples based on the posterior distribution of a set of pre-samples, reducing the cost of SC with minimal impact on performance. Both methods, however, do not exploit the prior information about question difficulty. It often results in unnecessary repeated sampling for easy questions that could be accurately answered with just one attempt, wasting resources. To tackle this problem, we propose Difficulty-Adaptive Self-Consistency (DSC), which leverages the difficulty information of batch queries from both prior and posterior perspectives to adaptively allocate inference resources, further reducing the overall cost of SC. To demonstrate the effectiveness of DSC, we conduct extensive experiments on three popular categories of reasoning tasks: arithmetic, commonsense and symbolic reasoning on six benchmarks. The empirical results show that DSC consistently surpasses the strong baseline ASC and ESC in terms of costs by a significant margin, while attaining comparable performances.

cs.CL↗

arXiv2025

LLM-Powered Benchmark Factory: Reliable, Generic, and Efficient

The rapid advancement of large language models (LLMs) has led to a surge in both model supply and application demands. To facilitate effective matching between them, reliable, generic and efficient benchmark generators are widely needed. However, human annotators are constrained by inefficiency, and current LLM benchmark generators not only lack generalizability but also struggle with limited reliability, as they lack a comprehensive evaluation framework for validation and optimization. To fill this gap, we first propose an automated and unbiased evaluation framework, structured around four dimensions and ten criteria. Under this framework, we carefully analyze the advantages and weaknesses of directly prompting LLMs as generic benchmark generators. To enhance the reliability, we introduce a series of methods to address the identified weaknesses and integrate them as BenchMaker. Experiments across multiple LLMs and tasks confirm that BenchMaker achieves superior or comparable performance to human-annotated benchmarks on all metrics, highlighting its generalizability and reliability. More importantly, it delivers highly consistent evaluation results across 12 LLMs (0.967 Pearson correlation against MMLU-Pro), while taking only $0.005 and 0.38 minutes per sample.

cs.CL↗

arXiv2025

EchoFM: Foundation Model for Generalizable Echocardiogram Analysis

Foundation models have recently gained significant attention because of their generalizability and adaptability across multiple tasks and data distributions. Although medical foundation models have emerged, solutions for cardiac imaging, especially echocardiography videos, are still unexplored. In this paper, we introduce EchoFM, a foundation model specifically designed to represent and analyze echocardiography videos. In EchoFM, we propose a self-supervised learning framework that captures both spatial and temporal variability patterns through a spatio-temporal consistent masking strategy and periodic-driven contrastive learning. This framework can effectively capture the spatio-temporal dynamics of echocardiography and learn the representative video features without any labels. We pre-train our model on an extensive dataset comprising over 290,000 echocardiography videos covering 26 scan views across different imaging modes, with up to 20 million frames of images. The pre-trained EchoFM can then be easily adapted and fine-tuned for a variety of downstream tasks, serving as a robust backbone model. Our evaluation was systemically designed for four downstream tasks after the echocardiography examination routine. Experiment results show that EchoFM surpasses state-of-the-art methods, including specialized echocardiography methods, self-supervised pre-training models, and general-purposed pre-trained foundation models, across all downstream tasks.

cs.CV↗

arXiv2025

Fine-Tuning Open-Source Large Language Models to Improve Their Performance on Radiation Oncology Tasks: A Feasibility Study to Investigate Their Potential Clinical Applications in Radiation Oncology

Background: The radiation oncology clinical practice involves many steps relying on the dynamic interplay of abundant text data. Large language models have displayed remarkable capabilities in processing complex text information. But their direct applications in specific fields like radiation oncology remain underexplored. Purpose: This study aims to investigate whether fine-tuning LLMs with domain knowledge can improve the performance on Task (1) treatment regimen generation, Task (2) treatment modality selection (photon, proton, electron, or brachytherapy), and Task (3) ICD-10 code prediction in radiation oncology. Methods: Data for 15,724 patient cases were extracted. Cases where patients had a single diagnostic record, and a clearly identifiable primary treatment plan were selected for preprocessing and manual annotation to have 7,903 cases of the patient diagnosis, treatment plan, treatment modality, and ICD-10 code. Each case was used to construct a pair consisting of patient diagnostics details and an answer (treatment regimen, treatment modality, or ICD-10 code respectively) for the supervised fine-tuning of these three tasks. Open source LLaMA2-7B and Mistral-7B models were utilized for the fine-tuning with the Low-Rank Approximations method. Accuracy and ROUGE-1 score were reported for the fine-tuned models and original models. Clinical evaluation was performed on Task (1) by radiation oncologists, while precision, recall, and F-1 score were evaluated for Task (2) and (3). One-sided Wilcoxon signed-rank tests were used to statistically analyze the results. Results: Fine-tuned LLMs outperformed original LLMs across all tasks with p-value <= 0.001. Clinical evaluation demonstrated that over 60% of the fine-tuned LLMs-generated treatment regimens were clinically acceptable. Precision, recall, and F1-score showed improved performance of fine-tuned LLMs.

physics.med-ph↗

arXiv2025

Large Language Models for Bioinformatics

With the rapid advancements in large language model (LLM) technology and the emergence of bioinformatics-specific language models (BioLMs), there is a growing need for a comprehensive analysis of the current landscape, computational characteristics, and diverse applications. This survey aims to address this need by providing a thorough review of BioLMs, focusing on their evolution, classification, and distinguishing features, alongside a detailed examination of training methodologies, datasets, and evaluation frameworks. We explore the wide-ranging applications of BioLMs in critical areas such as disease diagnosis, drug discovery, and vaccine development, highlighting their impact and transformative potential in bioinformatics. We identify key challenges and limitations inherent in BioLMs, including data privacy and security concerns, interpretability issues, biases in training data and model outputs, and domain adaptation complexities. Finally, we highlight emerging trends and future directions, offering valuable insights to guide researchers and clinicians toward advancing BioLMs for increasingly sophisticated biological and clinical applications.

q-bio.QM↗

arXiv2024

Spectroscopic origin of giant anomalous Hall effect in an interwoven magnetic kagome metal

The discovery of a giant anomalous Hall effect (AHE) and its novel mechanism holds significant promise for advancing both fundamental research and practical applications. Magnetic kagome lattice materials are uniquely suited for studying the AHE due to their interplay between electronic structure, topology, and magnetism. However, the geometric frustration inherent in kagome lattices often limits the configuration and tunability of magnetic order. Here, we present a new design strategy for kagome-lattice materials with emergent magnetism, exemplified by the magnetic kagome metal TbTi$_3$Bi$_4$, which features interwoven magnetic Tb zigzag chains and non-magnetic Ti kagome bilayers. This material exhibits a record-high anomalous Hall conductivity (AHC) of 10$^5$ $Ω^{-1}$ cm$^{-1}$. Spectroscopy measurements reveal a large band folding gap observed via angle-resolved photoemission spectroscopy, coexisting spin-density-wave (SDW) order detected through spin-polarized scanning tunneling spectroscopy, and a spiral magnetic order with large magnetic moments identified by neutron diffraction. These findings highlight a strong electron-magnetic coupling between itinerant charges and ordered magnetic moments, offering a spectroscopic explanation for the giant AHC in TbTi$_3$Bi$_4$. This work establishes a pathway for innovative material design strategies, unlocking new possibilities for future exploration and applications in quantum and spintronic technologies.

cond-mat.str-el↗

arXiv2024

SceneX: Procedural Controllable Large-scale Scene Generation

Developing comprehensive explicit world models is crucial for understanding and simulating real-world scenarios. Recently, Procedural Controllable Generation (PCG) has gained significant attention in large-scale scene generation by enabling the creation of scalable, high-quality assets. However, PCG faces challenges such as limited modular diversity, high expertise requirements, and challenges in managing the diverse elements and structures in complex scenes. In this paper, we introduce a large-scale scene generation framework, SceneX, which can automatically produce high-quality procedural models according to designers' textual descriptions. Specifically, the proposed method comprises two components, PCGHub and PCGPlanner. The former encompasses an extensive collection of accessible procedural assets and thousands of hand-craft API documents to perform as a standard protocol for PCG controller. The latter aims to generate executable actions for Blender to produce controllable and precise 3D assets guided by the user's instructions. Extensive experiments demonstrated the capability of our method in controllable large-scale scene generation, including nature scenes and unbounded cities, as well as scene editing such as asset placement and season translation.

cs.CV↗

arXiv2024

Jailbreaking? One Step Is Enough!

Large language models (LLMs) excel in various tasks but remain vulnerable to jailbreak attacks, where adversaries manipulate prompts to generate harmful outputs. Examining jailbreak prompts helps uncover the shortcomings of LLMs. However, current jailbreak methods and the target model's defenses are engaged in an independent and adversarial process, resulting in the need for frequent attack iterations and redesigning attacks for different models. To address these gaps, we propose a Reverse Embedded Defense Attack (REDA) mechanism that disguises the attack intention as the "defense". intention against harmful content. Specifically, REDA starts from the target response, guiding the model to embed harmful content within its defensive measures, thereby relegating harmful content to a secondary role and making the model believe it is performing a defensive task. The attacking model considers that it is guiding the target model to deal with harmful content, while the target model thinks it is performing a defensive task, creating an illusion of cooperation between the two. Additionally, to enhance the model's confidence and guidance in "defensive" intentions, we adopt in-context learning (ICL) with a small number of attack examples and construct a corresponding dataset of attack examples. Extensive evaluations demonstrate that the REDA method enables cross-model attacks without the need to redesign attack strategies for different models, enables successful jailbreak in one iteration, and outperforms existing methods on both open-source and closed-source models.

cs.CL↗

arXiv2024

Strong Inter-valley Electron-Phonon Coupling in Magic-Angle Twisted Bilayer Graphene

The unusual properties of superconductivity in magic-angle twisted bilayer graphene (MATBG) have sparked enormous research interest. However, despite the dedication of intensive experimental efforts and the proposal of several possible pairing mechanisms, the origin of its superconductivity remains elusive. Here, utilizing angle-resolved photoemission spectroscopy with micrometer spatial resolution, we have revealed flat band replicas in superconducting MATBG, where MATBG is unaligned with its hexagonal boron nitride (hBN) substrate11. These replicas exhibit uniform energy spacing, approximately 150 +- 15 meV apart, indicative of strong electron-boson coupling. Strikingly, these replicas are absent in non-superconducting twisted bilayer graphene (TBG) systems, either when MATBG is aligned to hBN or when TBG deviates from the magic angle. Calculations suggest that the formation of these flat band replicas in superconducting MATBG are attributed to the strong coupling between flat band electrons and an optical phonon mode at the graphene K point, facilitated by inter-valley scattering. These findings, although do not necessarily put electron phonon coupling as the main driving force for the superconductivity in MATBG, unravel the unique electronic structure inherent in superconducting MATBG, thereby providing crucial information for understanding the unusual electronic landscape from which the superconductivity is derived.

cond-mat.mes-hall↗

arXiv2024

CityX: Controllable Procedural Content Generation for Unbounded 3D Cities

Urban areas, as the primary human habitat in modern civilization, accommodate a broad spectrum of social activities. With the surge of embodied intelligence, recent years have witnessed an increasing presence of physical agents in urban areas, such as autonomous vehicles and delivery robots. As a result, practitioners significantly value crafting authentic, simulation-ready 3D cities to facilitate the training and verification of such agents. However, this task is quite challenging. Current generative methods fall short in either diversity, controllability, or fidelity. In this work, we resort to the procedural content generation (PCG) technique for high-fidelity generation. It assembles superior assets according to empirical rules, ultimately leading to industrial-grade outcomes. To ensure diverse and self contained creation, we design a management protocol to accommodate extensive PCG plugins with distinct functions and interfaces. Based on this unified PCG library, we develop a multi-agent framework to transform multi-modal instructions, including OSM, semantic maps, and satellite images, into executable programs. The programs coordinate relevant plugins to construct the 3D city consistent with the control condition. A visual feedback scheme is introduced to further refine the initial outcomes. Our method, named CityX, demonstrates its superiority in creating diverse, controllable, and realistic 3D urban scenes. The synthetic scenes can be seamlessly deployed as a real-time simulator and an infinite data generator for embodied intelligence research. Our project page: https://cityx-lab.github.io.

cs.CV↗

arXiv2024

TTT-Unet: Enhancing U-Net with Test-Time Training Layers for Biomedical Image Segmentation

Biomedical image segmentation is crucial for accurately diagnosing and analyzing various diseases. However, Convolutional Neural Networks (CNNs) and Transformers, the most commonly used architectures for this task, struggle to effectively capture long-range dependencies due to the inherent locality of CNNs and the computational complexity of Transformers. To address this limitation, we introduce TTT-Unet, a novel framework that integrates Test-Time Training (TTT) layers into the traditional U-Net architecture for biomedical image segmentation. TTT-Unet dynamically adjusts model parameters during the testing time, enhancing the model's ability to capture both local and long-range features. We evaluate TTT-Unet on multiple medical imaging datasets, including 3D abdominal organ segmentation in CT and MR images, instrument segmentation in endoscopy images, and cell segmentation in microscopy images. The results demonstrate that TTT-Unet consistently outperforms state-of-the-art CNN-based and Transformer-based segmentation models across all tasks. The code is available at https://github.com/rongzhou7/TTT-Unet.

eess.IV↗

arXiv2024

QueEn: A Large Language Model for Quechua-English Translation

Recent studies show that large language models (LLMs) are powerful tools for working with natural language, bringing advances in many areas of computational linguistics. However, these models face challenges when applied to low-resource languages due to limited training data and difficulty in understanding cultural nuances. In this paper, we propose QueEn, a novel approach for Quechua-English translation that combines Retrieval-Augmented Generation (RAG) with parameter-efficient fine-tuning techniques. Our method leverages external linguistic resources through RAG and uses Low-Rank Adaptation (LoRA) for efficient model adaptation. Experimental results show that our approach substantially exceeds baseline models, with a BLEU score of 17.6 compared to 1.5 for standard GPT models. The integration of RAG with fine-tuning allows our system to address the challenges of low-resource language translation while maintaining computational efficiency. This work contributes to the broader goal of preserving endangered languages through advanced language technologies.

cs.CL↗

arXiv2024

Analyzing Nobel Prize Literature with Large Language Models

This study examines the capabilities of advanced Large Language Models (LLMs), particularly the o1 model, in the context of literary analysis. The outputs of these models are compared directly to those produced by graduate-level human participants. By focusing on two Nobel Prize-winning short stories, 'Nine Chapters' by Han Kang, the 2024 laureate, and 'Friendship' by Jon Fosse, the 2023 laureate, the research explores the extent to which AI can engage with complex literary elements such as thematic analysis, intertextuality, cultural and historical contexts, linguistic and structural innovations, and character development. Given the Nobel Prize's prestige and its emphasis on cultural, historical, and linguistic richness, applying LLMs to these works provides a deeper understanding of both human and AI approaches to interpretation. The study uses qualitative and quantitative evaluations of coherence, creativity, and fidelity to the text, revealing the strengths and limitations of AI in tasks typically reserved for human expertise. While LLMs demonstrate strong analytical capabilities, particularly in structured tasks, they often fall short in emotional nuance and coherence, areas where human interpretation excels. This research underscores the potential for human-AI collaboration in the humanities, opening new opportunities in literary studies and beyond.

cs.CL↗

arXiv2024

OracleSage: Towards Unified Visual-Linguistic Understanding of Oracle Bone Scripts through Cross-Modal Knowledge Fusion

Oracle bone script (OBS), as China's earliest mature writing system, present significant challenges in automatic recognition due to their complex pictographic structures and divergence from modern Chinese characters. We introduce OracleSage, a novel cross-modal framework that integrates hierarchical visual understanding with graph-based semantic reasoning. Specifically, we propose (1) a Hierarchical Visual-Semantic Understanding module that enables multi-granularity feature extraction through progressive fine-tuning of LLaVA's visual backbone, (2) a Graph-based Semantic Reasoning Framework that captures relationships between visual components and semantic concepts through dynamic message passing, and (3) OracleSem, a semantically enriched OBS dataset with comprehensive pictographic and semantic annotations. Experimental results demonstrate that OracleSage significantly outperforms state-of-the-art vision-language models. This research establishes a new paradigm for ancient text interpretation while providing valuable technical support for archaeological studies.

cs.CV↗

arXiv2024

Artificial General Intelligence for Medical Imaging Analysis

Large-scale Artificial General Intelligence (AGI) models, including Large Language Models (LLMs) such as ChatGPT/GPT-4, have achieved unprecedented success in a variety of general domain tasks. Yet, when applied directly to specialized domains like medical imaging, which require in-depth expertise, these models face notable challenges arising from the medical field's inherent complexities and unique characteristics. In this review, we delve into the potential applications of AGI models in medical imaging and healthcare, with a primary focus on LLMs, Large Vision Models, and Large Multimodal Models. We provide a thorough overview of the key features and enabling techniques of LLMs and AGI, and further examine the roadmaps guiding the evolution and implementation of AGI models in the medical sector, summarizing their present applications, potentialities, and associated challenges. In addition, we highlight potential future research directions, offering a holistic view on upcoming ventures. This comprehensive review aims to offer insights into the future implications of AGI in medical imaging, healthcare, and beyond.

cs.AI↗