Pohsun Feng

Qian Niu, Junyu Liu, Ziqian Bi et al.

This comprehensive review explores the intersection of Large Language Models (LLMs) and cognitive science, examining similarities and differences between LLMs and human cognitive processes. We analyze methods for evaluating LLMs cognitive abilities and discuss their potential as cognitive models. The review covers applications of LLMs in various cognitive fields, highlighting insights gained for cognitive science research. We assess cognitive biases and limitations of LLMs, along with proposed methods for improving their performance. The integration of LLMs with cognitive architectures is examined, revealing promising avenues for enhancing artificial intelligence (AI) capabilities. Key challenges and future research directions are identified, emphasizing the need for continued refinement of LLMs to better align with human cognition. This review provides a balanced perspective on the current state and future potential of LLMs in advancing our understanding of both artificial and human intelligence.

Ming Li, Keyu Chen, Ziqian Bi et al.

The rise of Multimodal Large Language Models (MLLMs) has become a transformative force in the field of artificial intelligence, enabling machines to process and generate content across multiple modalities, such as text, images, audio, and video. These models represent a significant advancement over traditional unimodal systems, opening new frontiers in diverse applications ranging from autonomous agents to medical diagnostics. By integrating multiple modalities, MLLMs achieve a more holistic understanding of information, closely mimicking human perception. As the capabilities of MLLMs expand, the need for comprehensive and accurate performance evaluation has become increasingly critical. This survey aims to provide a systematic review of benchmark tests and evaluation methods for MLLMs, covering key topics such as foundational concepts, applications, evaluation methodologies, ethical concerns, security, efficiency, and domain-specific applications. Through the classification and analysis of existing literature, we summarize the main contributions and methodologies of various surveys, conduct a detailed comparative analysis, and examine their impact within the academic community. Additionally, we identify emerging trends and underexplored areas in MLLM research, proposing potential directions for future studies. This survey is intended to offer researchers and practitioners a comprehensive understanding of the current state of MLLM evaluation, thereby facilitating further progress in this rapidly evolving field.

Qian Niu, Keyu Chen, Ming Li et al.

Large Language Models (LLMs) have rapidly evolved from text-based systems to multimodal platforms, significantly impacting various sectors including healthcare. This comprehensive review explores the progression of LLMs to Multimodal Large Language Models (MLLMs) and their growing influence in medical practice. We examine the current landscape of MLLMs in healthcare, analyzing their applications across clinical decision support, medical imaging, patient engagement, and research. The review highlights the unique capabilities of MLLMs in integrating diverse data types, such as text, images, and audio, to provide more comprehensive insights into patient health. We also address the challenges facing MLLM implementation, including data limitations, technical hurdles, and ethical considerations. By identifying key research gaps, this paper aims to guide future investigations in areas such as dataset development, modality alignment methods, and the establishment of ethical guidelines. As MLLMs continue to shape the future of healthcare, understanding their potential and limitations is crucial for their responsible and effective integration into medical practice.

Weiche Hsieh, Ziqian Bi, Chuanqi Jiang et al.

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.

Tianyang Wang, Ziqian Bi, Keyu Chen et al.

Object-Oriented Programming (OOP) has become a crucial paradigm for managing the growing complexity of modern software systems, particularly in fields like machine learning, deep learning, large language models (LLM), and data analytics. This work provides a comprehensive introduction to the integration of OOP techniques within these domains, with a focus on improving code modularity, maintainability, and scalability. We begin by outlining the evolution of computing and the rise of OOP, followed by an in-depth discussion of key OOP principles such as encapsulation, inheritance, polymorphism, and abstraction. The practical application of these principles is demonstrated using Python, a widely adopted language in AI and data science. Furthermore, we examine how design patterns and modular programming can be employed to enhance the structure and efficiency of machine learning systems. In subsequent sections, we apply these OOP concepts to real-world AI tasks, including the encapsulation of preprocessing workflows, machine learning model training, and evaluation. Detailed examples illustrate how OOP can be used to build reusable, scalable machine learning systems while maintaining code clarity and reducing redundancy.This work is intended to serve as a bridge for both beginners and experienced developers, equipping them with the necessary knowledge to apply OOP methodologies in AI-driven projects, ultimately fostering the development of more robust and maintainable systems.

Keyu Chen, Ziqian Bi, Qian Niu et al.

The application of TensorFlow pre-trained models in deep learning is explored, with an emphasis on practical guidance for tasks such as image classification and object detection. The study covers modern architectures, including ResNet, MobileNet, and EfficientNet, and demonstrates the effectiveness of transfer learning through real-world examples and experiments. A comparison of linear probing and model fine-tuning is presented, supplemented by visualizations using techniques like PCA, t-SNE, and UMAP, allowing for an intuitive understanding of the impact of these approaches. The work provides complete example code and step-by-step instructions, offering valuable insights for both beginners and advanced users. By integrating theoretical concepts with hands-on practice, the paper equips readers with the tools necessary to address deep learning challenges efficiently.

Benji Peng, Xuanhe Pan, Yizhu Wen et al.

This book explores the role of Artificial Intelligence (AI), Machine Learning (ML), and Deep Learning (DL) in driving the progress of big data analytics and management. The book focuses on simplifying the complex mathematical concepts behind deep learning, offering intuitive visualizations and practical case studies to help readers understand how neural networks and technologies like Convolutional Neural Networks (CNNs) work. It introduces several classic models and technologies such as Transformers, GPT, ResNet, BERT, and YOLO, highlighting their applications in fields like natural language processing, image recognition, and autonomous driving. The book also emphasizes the importance of pre-trained models and how they can enhance model performance and accuracy, with instructions on how to apply these models in various real-world scenarios. Additionally, it provides an overview of key big data management technologies like SQL and NoSQL databases, as well as distributed computing frameworks such as Apache Hadoop and Spark, explaining their importance in managing and processing vast amounts of data. Ultimately, the book underscores the value of mastering deep learning and big data management skills as critical tools for the future workforce, making it an essential resource for both beginners and experienced professionals.

Yichao Zhang, Ningyuan Deng, Xinyuan Song et al.

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.

Lawrence K. Q. Yan, Qian Niu, Ming Li et al.

With the increasing application of large language models (LLMs) in the medical domain, evaluating these models' performance using benchmark datasets has become crucial. This paper presents a comprehensive survey of various benchmark datasets employed in medical LLM tasks. These datasets span multiple modalities including text, image, and multimodal benchmarks, focusing on different aspects of medical knowledge such as electronic health records (EHRs), doctor-patient dialogues, medical question-answering, and medical image captioning. The survey categorizes the datasets by modality, discussing their significance, data structure, and impact on the development of LLMs for clinical tasks such as diagnosis, report generation, and predictive decision support. Key benchmarks include MIMIC-III, MIMIC-IV, BioASQ, PubMedQA, and CheXpert, which have facilitated advancements in tasks like medical report generation, clinical summarization, and synthetic data generation. The paper summarizes the challenges and opportunities in leveraging these benchmarks for advancing multimodal medical intelligence, emphasizing the need for datasets with a greater degree of language diversity, structured omics data, and innovative approaches to synthesis. This work also provides a foundation for future research in the application of LLMs in medicine, contributing to the evolving field of medical artificial intelligence.

Benji Peng, Keyu Chen, Qian Niu et al.

Large Language Models (LLMs) have transformed artificial intelligence by advancing natural language understanding and generation, enabling applications across fields beyond healthcare, software engineering, and conversational systems. Despite these advancements in the past few years, LLMs have shown considerable vulnerabilities, particularly to prompt injection and jailbreaking attacks. This review analyzes the state of research on these vulnerabilities and presents available defense strategies. We roughly categorize attack approaches into prompt-based, model-based, multimodal, and multilingual, covering techniques such as adversarial prompting, backdoor injections, and cross-modality exploits. We also review various defense mechanisms, including prompt filtering, transformation, alignment techniques, multi-agent defenses, and self-regulation, evaluating their strengths and shortcomings. We also discuss key metrics and benchmarks used to assess LLM safety and robustness, noting challenges like the quantification of attack success in interactive contexts and biases in existing datasets. Identifying current research gaps, we suggest future directions for resilient alignment strategies, advanced defenses against evolving attacks, automation of jailbreak detection, and consideration of ethical and societal impacts. This review emphasizes the need for continued research and cooperation within the AI community to enhance LLM security and ensure their safe deployment.

Tianyang Wang, Yunze Wang, Jun Zhou et al.

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.

Charles Zhang, Benji Peng, Xintian Sun et al.

Word embeddings and language models have transformed natural language processing (NLP) by facilitating the representation of linguistic elements in continuous vector spaces. This review visits foundational concepts such as the distributional hypothesis and contextual similarity, tracing the evolution from sparse representations like one-hot encoding to dense embeddings including Word2Vec, GloVe, and fastText. We examine both static and contextualized embeddings, underscoring advancements in models such as ELMo, BERT, and GPT and their adaptations for cross-lingual and personalized applications. The discussion extends to sentence and document embeddings, covering aggregation methods and generative topic models, along with the application of embeddings in multimodal domains, including vision, robotics, and cognitive science. Advanced topics such as model compression, interpretability, numerical encoding, and bias mitigation are analyzed, addressing both technical challenges and ethical implications. Additionally, we identify future research directions, emphasizing the need for scalable training techniques, enhanced interpretability, and robust grounding in non-textual modalities. By synthesizing current methodologies and emerging trends, this survey offers researchers and practitioners an in-depth resource to push the boundaries of embedding-based language models.

Weiche Hsieh, Ziqian Bi, Junyu Liu et al.

Digital Signal Processing (DSP) and Digital Image Processing (DIP) with Machine Learning (ML) and Deep Learning (DL) are popular research areas in Computer Vision and related fields. We highlight transformative applications in image enhancement, filtering techniques, and pattern recognition. By integrating frameworks like the Discrete Fourier Transform (DFT), Z-Transform, and Fourier Transform methods, we enable robust data manipulation and feature extraction essential for AI-driven tasks. Using Python, we implement algorithms that optimize real-time data processing, forming a foundation for scalable, high-performance solutions in computer vision. This work illustrates the potential of ML and DL to advance DSP and DIP methodologies, contributing to artificial intelligence, automated feature extraction, and applications across diverse domains.

Jintao Ren, Ziqian Bi, Qian Niu et al.

An in-depth exploration of object detection and semantic segmentation is provided, combining theoretical foundations with practical applications. State-of-the-art advancements in machine learning and deep learning are reviewed, focusing on convolutional neural networks (CNNs), YOLO architectures, and transformer-based approaches such as DETR. The integration of artificial intelligence (AI) techniques and large language models for enhancing object detection in complex environments is examined. Additionally, a comprehensive analysis of big data processing is presented, with emphasis on model optimization and performance evaluation metrics. By bridging the gap between traditional methods and modern deep learning frameworks, valuable insights are offered for researchers, data scientists, and engineers aiming to apply AI-driven methodologies to large-scale object detection tasks.

Xintian Sun, Benji Peng, Charles Zhang et al.

Remote sensing has evolved from simple image acquisition to complex systems capable of integrating and processing visual and textual data. This review examines the development and application of multi-modal language models (MLLMs) in remote sensing, focusing on their ability to interpret and describe satellite imagery using natural language. We cover the technical underpinnings of MLLMs, including dual-encoder architectures, Transformer models, self-supervised and contrastive learning, and cross-modal integration. The unique challenges of remote sensing data--varying spatial resolutions, spectral richness, and temporal changes--are analyzed for their impact on MLLM performance. Key applications such as scene description, object detection, change detection, text-to-image retrieval, image-to-text generation, and visual question answering are discussed to demonstrate their relevance in environmental monitoring, urban planning, and disaster response. We review significant datasets and resources supporting the training and evaluation of these models. Challenges related to computational demands, scalability, data quality, and domain adaptation are highlighted. We conclude by proposing future research directions and technological advancements to further enhance MLLM utility in remote sensing.

Tianyang Wang, Ziqian Bi, Yichao Zhang et al.

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.

Keyu Chen, Cheng Fei, Ziqian Bi et al.

With a focus on natural language processing (NLP) and the role of large language models (LLMs), we explore the intersection of machine learning, deep learning, and artificial intelligence. As artificial intelligence continues to revolutionize fields from healthcare to finance, NLP techniques such as tokenization, text classification, and entity recognition are essential for processing and understanding human language. This paper discusses advanced data preprocessing techniques and the use of frameworks like Hugging Face for implementing transformer-based models. Additionally, it highlights challenges such as handling multilingual data, reducing bias, and ensuring model robustness. By addressing key aspects of data processing and model fine-tuning, this work aims to provide insights into deploying effective and ethically sound AI solutions.

Junhao Song, Yichao Zhang, Ziqian Bi et al.

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.

Tianyang Wang, Ming Liu, Benji Peng et al.

Clinical trials are an indispensable part of the drug development process, bridging the gap between basic research and clinical application. During the development of new drugs, clinical trials are used not only to evaluate the safety and efficacy of the drug but also to explore its dosage, treatment regimens, and potential side effects. This review discusses the various stages of clinical trials, including Phase I (safety assessment), Phase II (preliminary efficacy evaluation), Phase III (large-scale validation), and Phase IV (post-marketing surveillance), highlighting the characteristics of each phase and their interrelationships. Additionally, the paper addresses the major challenges encountered in clinical trials, such as ethical issues, subject recruitment difficulties, diversity and representativeness concerns, and proposes strategies for overcoming these challenges. With the advancement of technology, innovative technologies such as artificial intelligence, big data, and digitalization are gradually transforming clinical trial design and implementation, improving trial efficiency and data quality. The article also looks forward to the future of clinical trials, particularly the impact of emerging therapies such as gene therapy and immunotherapy on trial design, as well as the importance of regulatory reforms and global collaboration. In conclusion, the core role of clinical trials in drug development will continue to drive the progress of innovative drug development and clinical treatment.

Benji Peng, Chia Xin Liang, Ziqian Bi et al.

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.

Weiche Hsieh, Ziqian Bi, Keyu Chen et al.

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.

Silin Chen, Ziqian Bi, Junyu Liu et al.

This book provides a comprehensive introduction to the foundational concepts of machine learning (ML) and deep learning (DL). It bridges the gap between theoretical mathematics and practical application, focusing on Python as the primary programming language for implementing key algorithms and data structures. The book covers a wide range of topics, including basic and advanced Python programming, fundamental mathematical operations, matrix operations, linear algebra, and optimization techniques crucial for training ML and DL models. Advanced subjects like neural networks, optimization algorithms, and frequency domain methods are also explored, along with real-world applications of large language models (LLMs) and artificial intelligence (AI) in big data management. Designed for both beginners and advanced learners, the book emphasizes the critical role of mathematical principles in developing scalable AI solutions. Practical examples and Python code are provided throughout, ensuring readers gain hands-on experience in applying theoretical knowledge to solve complex problems in ML, DL, and big data analytics.

Pohsun Feng, Ziqian Bi, Yizhu Wen et al.

A comprehensive guide to Automated Machine Learning (AutoML) is presented, covering fundamental principles, practical implementations, and future trends. The paper is structured to assist both beginners and experienced practitioners, with detailed discussions on popular AutoML tools such as TPOT, AutoGluon, and Auto-Keras. Emerging topics like Neural Architecture Search (NAS) and AutoML's applications in deep learning are also addressed. It is anticipated that this work will contribute to ongoing research and development in the field of AI and machine learning.