arXiv subjects

Tianyang Wang

Publications and source records attributed to Tianyang Wang.

At least 109 records · Page 6Linked to original sources

arXiv2025

Advanced Deep Learning Methods for Protein Structure Prediction and Design

After AlphaFold won the Nobel Prize, protein prediction with deep learning once again became a hot topic. We comprehensively explore advanced deep learning methods applied to protein structure prediction and design. It begins by examining recent innovations in prediction architectures, with detailed discussions on improvements such as diffusion based frameworks and novel pairwise attention modules. The text analyses key components including structure generation, evaluation metrics, multiple sequence alignment processing, and network architecture, thereby illustrating the current state of the art in computational protein modelling. Subsequent chapters focus on practical applications, presenting case studies that range from individual protein predictions to complex biomolecular interactions. Strategies for enhancing prediction accuracy and integrating deep learning techniques with experimental validation are thoroughly explored. The later sections review the industry landscape of protein design, highlighting the transformative role of artificial intelligence in biotechnology and discussing emerging market trends and future challenges. Supplementary appendices provide essential resources such as databases and open source tools, making this volume a valuable reference for researchers and students.

q-bio.BM↗

arXiv2025

Visual Variational Autoencoder Prompt Tuning

Parameter-efficient fine-tuning (PEFT) has emerged as a crucial approach for adapting large vision transformers to downstream tasks without the prohibitive computational costs of full fine-tuning. While existing visual prompt tuning (VPT) methods have made significant strides, they predominantly rely on static, domain-specific prompts that fail to capture the rich visual diversity within individual instances. This paper introduces V$^2$APT (Visual Variational Autoencoder Prompt Tuning), a novel framework that generates dynamic, input-dependent prompts using a variational autoencoder architecture. By learning a latent representation of image-specific features and decoding them into customized prompts, V$^2$APT adapts to the unique visual characteristics of each input. Extensive experiments on FGVC, HTA, and VTAB-1k benchmarks demonstrate that our approach consistently outperforms state-of-the-art PEFT methods. Notably, V$^2$APT achieves +3.2\% improvement over VPT-Deep on HTA, with an average performance gain of +2.0\% across all three datasets.

cs.CV↗

arXiv2025

MagicID: Hybrid Preference Optimization for ID-Consistent and Dynamic-Preserved Video Customization

Video identity customization seeks to produce high-fidelity videos that maintain consistent identity and exhibit significant dynamics based on users' reference images. However, existing approaches face two key challenges: identity degradation over extended video length and reduced dynamics during training, primarily due to their reliance on traditional self-reconstruction training with static images. To address these issues, we introduce $\textbf{MagicID}$, a novel framework designed to directly promote the generation of identity-consistent and dynamically rich videos tailored to user preferences. Specifically, we propose constructing pairwise preference video data with explicit identity and dynamic rewards for preference learning, instead of sticking to the traditional self-reconstruction. To address the constraints of customized preference data, we introduce a hybrid sampling strategy. This approach first prioritizes identity preservation by leveraging static videos derived from reference images, then enhances dynamic motion quality in the generated videos using a Frontier-based sampling method. By utilizing these hybrid preference pairs, we optimize the model to align with the reward differences between pairs of customized preferences. Extensive experiments show that MagicID successfully achieves consistent identity and natural dynamics, surpassing existing methods across various metrics.

cs.CV↗

arXiv2025

Generative Adversarial Networks Bridging Art and Machine Intelligence

Generative Adversarial Networks (GAN) have greatly influenced the development of computer vision and artificial intelligence in the past decade and also connected art and machine intelligence together. This book begins with a detailed introduction to the fundamental principles and historical development of GANs, contrasting them with traditional generative models and elucidating the core adversarial mechanisms through illustrative Python examples. The text systematically addresses the mathematical and theoretical underpinnings including probability theory, statistics, and game theory providing a solid framework for understanding the objectives, loss functions, and optimisation challenges inherent to GAN training. Subsequent chapters review classic variants such as Conditional GANs, DCGANs, InfoGAN, and LAPGAN before progressing to advanced training methodologies like Wasserstein GANs, GANs with gradient penalty, least squares GANs, and spectral normalisation techniques. The book further examines architectural enhancements and task-specific adaptations in generators and discriminators, showcasing practical implementations in high resolution image generation, artistic style transfer, video synthesis, text to image generation and other multimedia applications. The concluding sections offer insights into emerging research trends, including self-attention mechanisms, transformer-based generative models, and a comparative analysis with diffusion models, thus charting promising directions for future developments in both academic and applied settings.

cs.LG↗

arXiv2025

TD-RD: A Top-Down Benchmark with Real-Time Framework for Road Damage Detection

Object detection has witnessed remarkable advancements over the past decade, largely driven by breakthroughs in deep learning and the proliferation of large scale datasets. However, the domain of road damage detection remains relatively under explored, despite its critical significance for applications such as infrastructure maintenance and road safety. This paper addresses this gap by introducing a novel top down benchmark that offers a complementary perspective to existing datasets, specifically tailored for road damage detection. Our proposed Top Down Road Damage Detection Dataset (TDRD) includes three primary categories of road damage cracks, potholes, and patches captured from a top down viewpoint. The dataset consists of 7,088 high resolution images, encompassing 12,882 annotated instances of road damage. Additionally, we present a novel real time object detection framework, TDYOLOV10, designed to handle the unique challenges posed by the TDRD dataset. Comparative studies with state of the art models demonstrate competitive baseline results. By releasing TDRD, we aim to accelerate research in this crucial area. A sample of the dataset will be made publicly available upon the paper's acceptance.

cs.CV↗

arXiv2025

Surveying Attitudinal Alignment Between Large Language Models Vs. Humans Towards 17 Sustainable Development Goals

Large Language Models (LLMs) have emerged as potent tools for advancing the United Nations' Sustainable Development Goals (SDGs). However, the attitudinal disparities between LLMs and humans towards these goals can pose significant challenges. This study conducts a comprehensive review and analysis of the existing literature on the attitudes of LLMs towards the 17 SDGs, emphasizing the comparison between their attitudes and support for each goal and those of humans. We examine the potential disparities, primarily focusing on aspects such as understanding and emotions, cultural and regional differences, task objective variations, and factors considered in the decision-making process. These disparities arise from the underrepresentation and imbalance in LLM training data, historical biases, quality issues, lack of contextual understanding, and skewed ethical values reflected. The study also investigates the risks and harms that may arise from neglecting the attitudes of LLMs towards the SDGs, including the exacerbation of social inequalities, racial discrimination, environmental destruction, and resource wastage. To address these challenges, we propose strategies and recommendations to guide and regulate the application of LLMs, ensuring their alignment with the principles and goals of the SDGs, and therefore creating a more just, inclusive, and sustainable future.

cs.CY↗

arXiv2025

From Aleatoric to Epistemic: Exploring Uncertainty Quantification Techniques in Artificial Intelligence

Uncertainty quantification (UQ) is a critical aspect of artificial intelligence (AI) systems, particularly in high-risk domains such as healthcare, autonomous systems, and financial technology, where decision-making processes must account for uncertainty. This review explores the evolution of uncertainty quantification techniques in AI, distinguishing between aleatoric and epistemic uncertainties, and discusses the mathematical foundations and methods used to quantify these uncertainties. We provide an overview of advanced techniques, including probabilistic methods, ensemble learning, sampling-based approaches, and generative models, while also highlighting hybrid approaches that integrate domain-specific knowledge. Furthermore, we examine the diverse applications of UQ across various fields, emphasizing its impact on decision-making, predictive accuracy, and system robustness. The review also addresses key challenges such as scalability, efficiency, and integration with explainable AI, and outlines future directions for research in this rapidly developing area. Through this comprehensive survey, we aim to provide a deeper understanding of UQ's role in enhancing the reliability, safety, and trustworthiness of AI systems.

cs.AI↗

arXiv2024

Deep Learning Model Security: Threats and Defenses

Deep learning has transformed AI applications but faces critical security challenges, including adversarial attacks, data poisoning, model theft, and privacy leakage. This survey examines these vulnerabilities, detailing their mechanisms and impact on model integrity and confidentiality. Practical implementations, including adversarial examples, label flipping, and backdoor attacks, are explored alongside defenses such as adversarial training, differential privacy, and federated learning, highlighting their strengths and limitations. Advanced methods like contrastive and self-supervised learning are presented for enhancing robustness. The survey concludes with future directions, emphasizing automated defenses, zero-trust architectures, and the security challenges of large AI models. A balanced approach to performance and security is essential for developing reliable deep learning systems.

cs.CR↗

arXiv2024

From Noise to Nuance: Advances in Deep Generative Image Models

Deep learning-based image generation has undergone a paradigm shift since 2021, marked by fundamental architectural breakthroughs and computational innovations. Through reviewing architectural innovations and empirical results, this paper analyzes the transition from traditional generative methods to advanced architectures, with focus on compute-efficient diffusion models and vision transformer architectures. We examine how recent developments in Stable Diffusion, DALL-E, and consistency models have redefined the capabilities and performance boundaries of image synthesis, while addressing persistent challenges in efficiency and quality. Our analysis focuses on the evolution of latent space representations, cross-attention mechanisms, and parameter-efficient training methodologies that enable accelerated inference under resource constraints. While more efficient training methods enable faster inference, advanced control mechanisms like ControlNet and regional attention systems have simultaneously improved generation precision and content customization. We investigate how enhanced multi-modal understanding and zero-shot generation capabilities are reshaping practical applications across industries. Our analysis demonstrates that despite remarkable advances in generation quality and computational efficiency, critical challenges remain in developing resource-conscious architectures and interpretable generation systems for industrial applications. The paper concludes by mapping promising research directions, including neural architecture optimization and explainable generation frameworks.

cs.CV↗

arXiv2024

A Comprehensive Guide to Explainable AI: From Classical Models to LLMs

Explainable Artificial Intelligence (XAI) addresses the growing need for transparency and interpretability in AI systems, enabling trust and accountability in decision-making processes. This book offers a comprehensive guide to XAI, bridging foundational concepts with advanced methodologies. It explores interpretability in traditional models such as Decision Trees, Linear Regression, and Support Vector Machines, alongside the challenges of explaining deep learning architectures like CNNs, RNNs, and Large Language Models (LLMs), including BERT, GPT, and T5. The book presents practical techniques such as SHAP, LIME, Grad-CAM, counterfactual explanations, and causal inference, supported by Python code examples for real-world applications. Case studies illustrate XAI's role in healthcare, finance, and policymaking, demonstrating its impact on fairness and decision support. The book also covers evaluation metrics for explanation quality, an overview of cutting-edge XAI tools and frameworks, and emerging research directions, such as interpretability in federated learning and ethical AI considerations. Designed for a broad audience, this resource equips readers with the theoretical insights and practical skills needed to master XAI. Hands-on examples and additional resources are available at the companion GitHub repository: https://github.com/Echoslayer/XAI_From_Classical_Models_to_LLMs.

cs.LG↗

arXiv2024

Deep Learning, Machine Learning, Advancing Big Data Analytics and Management

Advancements in artificial intelligence, machine learning, and deep learning have catalyzed the transformation of big data analytics and management into pivotal domains for research and application. This work explores the theoretical foundations, methodological advancements, and practical implementations of these technologies, emphasizing their role in uncovering actionable insights from massive, high-dimensional datasets. The study presents a systematic overview of data preprocessing techniques, including data cleaning, normalization, integration, and dimensionality reduction, to prepare raw data for analysis. Core analytics methodologies such as classification, clustering, regression, and anomaly detection are examined, with a focus on algorithmic innovation and scalability. Furthermore, the text delves into state-of-the-art frameworks for data mining and predictive modeling, highlighting the role of neural networks, support vector machines, and ensemble methods in tackling complex analytical challenges. Special emphasis is placed on the convergence of big data with distributed computing paradigms, including cloud and edge computing, to address challenges in storage, computation, and real-time analytics. The integration of ethical considerations, including data privacy and compliance with global standards, ensures a holistic perspective on data management. Practical applications across healthcare, finance, marketing, and policy-making illustrate the real-world impact of these technologies. Through comprehensive case studies and Python-based implementations, this work equips researchers, practitioners, and data enthusiasts with the tools to navigate the complexities of modern data analytics. It bridges the gap between theory and practice, fostering the development of innovative solutions for managing and leveraging data in the era of artificial intelligence.

cs.LG↗

arXiv2024

Deep Active Learning with Manifold-preserving Trajectory Sampling

Active learning (AL) is for optimizing the selection of unlabeled data for annotation (labeling), aiming to enhance model performance while minimizing labeling effort. The key question in AL is which unlabeled data should be selected for annotation. Existing deep AL methods arguably suffer from bias incurred by clabeled data, which takes a much lower percentage than unlabeled data in AL context. We observe that such an issue is severe in different types of data, such as vision and non-vision data. To address this issue, we propose a novel method, namely Manifold-Preserving Trajectory Sampling (MPTS), aiming to enforce the feature space learned from labeled data to represent a more accurate manifold. By doing so, we expect to effectively correct the bias incurred by labeled data, which can cause a biased selection of unlabeled data. Despite its focus on manifold, the proposed method can be conveniently implemented by performing distribution mapping with MMD (Maximum Mean Discrepancies). Extensive experiments on various vision and non-vision benchmark datasets demonstrate the superiority of our method. Our source code can be found here.

cs.CV↗

arXiv2024

Multimodal Generalized Category Discovery

Generalized Category Discovery (GCD) aims to classify inputs into both known and novel categories, a task crucial for open-world scientific discoveries. However, current GCD methods are limited to unimodal data, overlooking the inherently multimodal nature of most real-world data. In this work, we extend GCD to a multimodal setting, where inputs from different modalities provide richer and complementary information. Through theoretical analysis and empirical validation, we identify that the key challenge in multimodal GCD lies in effectively aligning heterogeneous information across modalities. To address this, we propose MM-GCD, a novel framework that aligns both the feature and output spaces of different modalities using contrastive learning and distillation techniques. MM-GCD achieves new state-of-the-art performance on the UPMC-Food101 and N24News datasets, surpassing previous methods by 11.5\% and 4.7\%, respectively.

cs.CV↗

arXiv2024

Classifier-Free Diffusion-Based Weakly-Supervised Approach for Health Indicator Derivation in Rotating Machines: Advancing Early Fault Detection and Condition Monitoring

Deriving health indicators of rotating machines is crucial for their maintenance. However, this process is challenging for the prevalent adopted intelligent methods since they may take the whole data distributions, not only introducing noise interference but also lacking the explainability. To address these issues, we propose a diffusion-based weakly-supervised approach for deriving health indicators of rotating machines, enabling early fault detection and continuous monitoring of condition evolution. This approach relies on a classifier-free diffusion model trained using healthy samples and a few anomalies. This model generates healthy samples. and by comparing the differences between the original samples and the generated ones in the envelope spectrum, we construct an anomaly map that clearly identifies faults. Health indicators are then derived, which can explain the fault types and mitigate noise interference. Comparative studies on two cases demonstrate that the proposed method offers superior health monitoring effectiveness and robustness compared to baseline models.

cs.LG↗

arXiv2024

Training-free CryoET Tomogram Segmentation

Cryogenic Electron Tomography (CryoET) is a useful imaging technology in structural biology that is hindered by its need for manual annotations, especially in particle picking. Recent works have endeavored to remedy this issue with few-shot learning or contrastive learning techniques. However, supervised training is still inevitable for them. We instead choose to leverage the power of existing 2D foundation models and present a novel, training-free framework, CryoSAM. In addition to prompt-based single-particle instance segmentation, our approach can automatically search for similar features, facilitating full tomogram semantic segmentation with only one prompt. CryoSAM is composed of two major parts: 1) a prompt-based 3D segmentation system that uses prompts to complete single-particle instance segmentation recursively with Cross-Plane Self-Prompting, and 2) a Hierarchical Feature Matching mechanism that efficiently matches relevant features with extracted tomogram features. They collaborate to enable the segmentation of all particles of one category with just one particle-specific prompt. Our experiments show that CryoSAM outperforms existing works by a significant margin and requires even fewer annotations in particle picking. Further visualizations demonstrate its ability when dealing with full tomogram segmentation for various subcellular structures. Our code is available at: https://github.com/xulabs/aitom

q-bio.QM↗

arXiv2024

HGTDP-DTA: Hybrid Graph-Transformer with Dynamic Prompt for Drug-Target Binding Affinity Prediction

Drug target binding affinity (DTA) is a key criterion for drug screening. Existing experimental methods are time-consuming and rely on limited structural and domain information. While learning-based methods can model sequence and structural information, they struggle to integrate contextual data and often lack comprehensive modeling of drug-target interactions. In this study, we propose a novel DTA prediction method, termed HGTDP-DTA, which utilizes dynamic prompts within a hybrid Graph-Transformer framework. Our method generates context-specific prompts for each drug-target pair, enhancing the model's ability to capture unique interactions. The introduction of prompt tuning further optimizes the prediction process by filtering out irrelevant noise and emphasizing task-relevant information, dynamically adjusting the input features of the molecular graph. The proposed hybrid Graph-Transformer architecture combines structural information from Graph Convolutional Networks (GCNs) with sequence information captured by Transformers, facilitating the interaction between global and local information. Additionally, we adopted the multi-view feature fusion method to project molecular graph views and affinity subgraph views into a common feature space, effectively combining structural and contextual information. Experiments on two widely used public datasets, Davis and KIBA, show that HGTDP-DTA outperforms state-of-the-art DTA prediction methods in both prediction performance and generalization ability.

cs.LG↗

arXiv2024

Cycle-YOLO: A Efficient and Robust Framework for Pavement Damage Detection

With the development of modern society, traffic volume continues to increase in most countries worldwide, leading to an increase in the rate of pavement damage Therefore, the real-time and highly accurate pavement damage detection and maintenance have become the current need. In this paper, an enhanced pavement damage detection method with CycleGAN and improved YOLOv5 algorithm is presented. We selected 7644 self-collected images of pavement damage samples as the initial dataset and augmented it by CycleGAN. Due to a substantial difference between the images generated by CycleGAN and real road images, we proposed a data enhancement method based on an improved Scharr filter, CycleGAN, and Laplacian pyramid. To improve the target recognition effect on a complex background and solve the problem that the spatial pyramid pooling-fast module in the YOLOv5 network cannot handle multiscale targets, we introduced the convolutional block attention module attention mechanism and proposed the atrous spatial pyramid pooling with squeeze-and-excitation structure. In addition, we optimized the loss function of YOLOv5 by replacing the CIoU with EIoU. The experimental results showed that our algorithm achieved a precision of 0.872, recall of 0.854, and mean average precision@0.5 of 0.882 in detecting three main types of pavement damage: cracks, potholes, and patching. On the GPU, its frames per second reached 68, meeting the requirements for real-time detection. Its overall performance even exceeded the current more advanced YOLOv7 and achieved good results in practical applications, providing a basis for decision-making in pavement damage detection and prevention.

cs.CV↗

arXiv2024

Multi-dimension Transformer with Attention-based Filtering for Medical Image Segmentation

The accurate segmentation of medical images is crucial for diagnosing and treating diseases. Recent studies demonstrate that vision transformer-based methods have significantly improved performance in medical image segmentation, primarily due to their superior ability to establish global relationships among features and adaptability to various inputs. However, these methods struggle with the low signal-to-noise ratio inherent to medical images. Additionally, the effective utilization of channel and spatial information, which are essential for medical image segmentation, is limited by the representation capacity of self-attention. To address these challenges, we propose a multi-dimension transformer with attention-based filtering (MDT-AF), which redesigns the patch embedding and self-attention mechanism for medical image segmentation. MDT-AF incorporates an attention-based feature filtering mechanism into the patch embedding blocks and employs a coarse-to-fine process to mitigate the impact of low signal-to-noise ratio. To better capture complex structures in medical images, MDT-AF extends the self-attention mechanism to incorporate spatial and channel dimensions, enriching feature representation. Moreover, we introduce an interaction mechanism to improve the feature aggregation between spatial and channel dimensions. Experimental results on three public medical image segmentation benchmarks show that MDT-AF achieves state-of-the-art (SOTA) performance.

cs.CV↗