This thesis works to address a pivotal challenge in medical image analysis: the reliance on extensive labeled datasets, which are often limited due to the need for expert annotation and constrained by privacy and legal issues. By focusing on the development of self-supervised learning techniques and domain adaptation methods, this research aims to circumvent these limitations, presenting a novel approach to enhance the utility and efficacy of deep learning in medical imaging. Central to this thesis is the development of the Medformer, an innovative neural network architecture designed for multitask learning and deep domain adaptation. This model is adept at pre-training on diverse medical image datasets, handling varying sizes and modalities, and is equipped with a dynamic input-output adaptation mechanism. This enables efficient processing and integration of a wide range of medical image types, from 2D X-rays to complex 3D MRIs, thus mitigating the dependency on large labeled datasets. Further, the thesis explores the current state of self-supervised learning in medical imaging. It introduces novel pretext tasks that are capable of extracting meaningful information from unlabeled data, significantly advancing the model's interpretative abilities. This approach is validated through rigorous experimentation, including the use of the MedMNIST dataset, demonstrating the model's proficiency in learning generalized features applicable to various downstream tasks. In summary, this thesis contributes to the advancement of medical image analysis by offering a scalable, adaptable framework that reduces reliance on labeled data. It paves the way for more accurate, efficient diagnostic tools in healthcare, signifying a major step forward in the application of deep learning in medical imaging.

Text-to-SQL tasks have gained attractive improvements since the release of ChatGPT. Among them, agent-based frameworks have been widely used in this field. However, the impact of data-centric strategies on text-to-SQL tasks has rarely been explored. In this paper, we systemically design a fully automated data-centric pipeline for text-to-SQL tasks, including \emph{adaptive data repair}, which can automatically find and fix errors in the training dataset; and \emph{error data augmentation}, where we specifically diffuse and enhance erroneous data predicted by the initially trained models. Meanwhile, we propose a Multi-Model collaboration training schema, aiming to train multiple models with different augmented data, enabling them to possess distinct capabilities and work together to complement each other, because it has been found that the capability of a single fine-tuned model is very limited. Furthermore, we utilize an ensemble strategy to integrate the capabilities of multiple models to solve a multiple-choice question, aiming to further improve the accuracy of text-to-SQL tasks. The experiment results and ablation study have demonstrated the effectiveness of data-centric pipeline and Multi-Model(MM) interactive iterative strategies, achieving first place in lightweight text-to-SQL models (within 70B).

Accurate protein function prediction requires integrating heterogeneous intrinsic signals (e.g., sequence and structure) with noisy extrinsic contexts (e.g., protein-protein interactions and GO term annotations). However, two key challenges hinder effective fusion: (i) cross-modal distributional mismatch among embeddings produced by pre-trained intrinsic encoders, and (ii) noisy relational graphs of extrinsic data that degrade GNN-based information aggregation. We propose Diffused and Aligned Multi-modal Protein Embedding (DAMPE), a unified framework that addresses these through two core mechanisms. First, we propose Optimal Transport (OT)-based representation alignment that establishes correspondence between intrinsic embedding spaces of different modalities, effectively mitigating cross-modal heterogeneity. Second, we develop a Conditional Graph Generation (CGG)-based information fusion method, where a condition encoder fuses the aligned intrinsic embeddings to provide informative cues for graph reconstruction. Meanwhile, our theoretical analysis implies that the CGG objective drives this condition encoder to absorb graph-aware knowledge into its produced protein representations. Empirically, DAMPE outperforms or matches state-of-the-art methods such as DPFunc on standard GO benchmarks, achieving AUPR gains of 0.002-0.013 pp and Fmax gains 0.004-0.007 pp. Ablation studies further show that OT-based alignment contributes 0.043-0.064 pp AUPR, while CGG-based fusion adds 0.005-0.111 pp Fmax. Overall, DAMPE offers a scalable and theoretically grounded approach for robust multi-modal protein representation learning, substantially enhancing protein function prediction.

Large Language Models (LLMs) have become valuable assistants for developers in code-related tasks. While LLMs excel at traditional programming tasks such as code generation and bug fixing, they struggle with visually-oriented coding tasks, often producing suboptimal aesthetics. In this paper, we introduce a new pipeline to enhance the aesthetic quality of LLM-generated code. We first construct AesCode-358K, a large-scale instruction-tuning dataset focused on code aesthetics. Next, we propose agentic reward feedback, a multi-agent system that evaluates executability, static aesthetics, and interactive aesthetics. Building on this, we develop GRPO-AR, which integrates these signals into the GRPO algorithm for joint optimization of functionality and code aesthetics. Finally, we develop OpenDesign, a benchmark for assessing code aesthetics. Experimental results show that combining supervised fine-tuning on AesCode-358K with reinforcement learning using agentic reward feedback significantly improves performance on OpenDesign and also enhances results on existing benchmarks such as PandasPlotBench. Notably, our AesCoder-4B surpasses GPT -4o and GPT -4.1, and achieves performance comparable to large open-source models with 480B-685B parameters, underscoring the effectiveness of our approach.Figure 1: Performance comparison of different models on the OpenDesign benchmark.

Mubeen is a proprietary Arabic language model developed by MASARAT SA, optimized for a deep understanding of Arabic linguistics, Islamic studies, and cultural heritage. Trained on an extensive collection of authentic Arabic sources significantly expanded by digitizing historical manuscripts via a proprietary Arabic OCR engine developed by Our Team, including seminal scholarly works in linguistics, jurisprudence, hadith, and Quranic exegesis, alongside thousands of academic theses and peer-reviewed research papers and conditioned through a deep linguistic engineering framework to master not just the meaning but the eloquence of Arabic. This enables a deep and precise understanding of Arabic across all its levels from classical texts to contemporary writing and regional dialects with a focus on comprehending user intent and delivering accurate, contextually relevant responses. Unlike other Arabic models that rely on translated English data and often fail in intent detection or retrieval-augmented generation (RAG), Mubeen uses native Arabic sources to ensure cultural authenticity and accuracy. Its core innovation is the Practical Closure Architecture, designed to solve the "Utility Gap Crisis," where factually correct answers fail to resolve the user's core need, forcing them into frustrating cycles of re-prompting and clarification. By prioritizing clarity and decisive guidance, Mubeen transforms from an information repository into a decisive guide, aligning with Saudi Vision 2030. The model's architecture combines deep heritage specialization with multi-disciplinary expert modules, enabling robust performance across both cultural preservation and general knowledge domains.

Circuit discovery, which involves identifying sparse and task-relevant subnetworks in pre-trained language models, is a cornerstone of mechanistic interpretability. Automated Circuit Discovery (ACDC) has emerged as a pivotal methodology in circuit discovery, but its application to large language models is severely limited by computational inefficiency and prohibitively high memory requirements. Although several accelerated approaches have been proposed, they primarily rely on linear approximations to ACDC, which significantly compromises analytical faithfulness. Our proposed method for accelerating automated circuit discovery, Per Attention Head Quantization (PAHQ), takes a fundamentally different approach by optimizing the efficiency of each individual patching operation. PAHQ leverages a fundamental alignment between activation patching and mixed-precision quantization (MPQ): interpretability analysis through patching essentially performs targeted ablation studies. Therefore, we can maintain high precision exclusively for investigated components while safely reducing precision elsewhere in the network. PAHQ-accelerated ACDC reduces runtime by up to 80\% and memory consumption by up to 30\% compared to unaccelerated ACDC while maintaining faithfulness. Importantly, our method readily integrates with existing edge-based circuit discovery techniques by modifying the attention computation mechanism. This training-free approach provides a practical and novel pathway for accelerating mechanistic interpretability methods. Our code is available at https://github.com/626619403/PAHQ.

The interdisciplinary research domain of Artificial Intelligence in Education (AIED) has a long history of developing Intelligent Tutoring Systems (ITSs) by integrating insights from technological advancements, educational theories, and cognitive psychology. The remarkable success of generative AI (GenAI) models has accelerated the development of large language model (LLM)-powered ITSs, which have potential to imitate human-like, pedagogically rich, and cognitively demanding tutoring. However, the progress and impact of these systems remain largely untraceable due to the absence of reliable, universally accepted, and pedagogy-driven evaluation frameworks and benchmarks. Most existing educational dialogue-based ITS evaluations rely on subjective protocols and non-standardized benchmarks, leading to inconsistencies and limited generalizability. In this work, we take a step back from mainstream ITS development and provide comprehensive state-of-the-art evaluation practices, highlighting associated challenges through real-world case studies from careful and caring AIED research. Finally, building on insights from previous interdisciplinary AIED research, we propose three practical, feasible, and theoretically grounded research directions, rooted in learning science principles and aimed at establishing fair, unified, and scalable evaluation methodologies for ITSs.

Data poisoning attacks are a potential threat to machine learning (ML) models, aiming to manipulate training datasets to disrupt their performance. Existing defenses are mostly designed to mitigate specific poisoning attacks or are aligned with particular ML algorithms. Furthermore, most defenses are developed to secure deep neural networks or binary classifiers. However, traditional multiclass classifiers need attention to be secure from data poisoning attacks, as these models are significant in developing multi-modal applications. Therefore, this paper proposes SecureLearn, a two-layer attack-agnostic defense to defend multiclass models from poisoning attacks. It comprises two components of data sanitization and a new feature-oriented adversarial training. To ascertain the effectiveness of SecureLearn, we proposed a 3D evaluation matrix with three orthogonal dimensions: data poisoning attack, data sanitization and adversarial training. Benchmarking SecureLearn in a 3D matrix, a detailed analysis is conducted at different poisoning levels (10%-20%), particularly analysing accuracy, recall, F1-score, detection and correction rates, and false discovery rate. The experimentation is conducted for four ML algorithms, namely Random Forest (RF), Decision Tree (DT), Gaussian Naive Bayes (GNB) and Multilayer Perceptron (MLP), trained with three public datasets, against three poisoning attacks and compared with two existing mitigations. Our results highlight that SecureLearn is effective against the provided attacks. SecureLearn has strengthened resilience and adversarial robustness of traditional multiclass models and neural networks, confirming its generalization beyond algorithm-specific defenses. It consistently maintained accuracy above 90%, recall and F1-score above 75%. For neural networks, SecureLearn achieved 97% recall and F1-score against all selected poisoning attacks.

Machine learning has achieved remarkable successes, yet its deployment in safety-critical domains remains hindered by an inherent inability to manage uncertainty, resulting in overconfident and unreliable predictions when models encounter out-of-distribution data, adversarial perturbations, or naturally fluctuating environments. This thesis, titled Epistemic Deep Learning: Enabling Machine Learning Models to 'Know When They Do Not Know', addresses these critical challenges by advancing the paradigm of Epistemic Artificial Intelligence, which explicitly models and quantifies epistemic uncertainty: the uncertainty arising from limited, biased, or incomplete training data, as opposed to the irreducible randomness of aleatoric uncertainty, thereby empowering models to acknowledge their limitations and refrain from overconfident decisions when uncertainty is high. Central to this work is the development of the Random-Set Neural Network (RS-NN), a novel methodology that leverages random set theory to predict belief functions over sets of classes, capturing the extent of epistemic uncertainty through the width of associated credal sets, applications of RS-NN, including its adaptation to Large Language Models (LLMs) and its deployment in weather classification for autonomous racing. In addition, the thesis proposes a unified evaluation framework for uncertainty-aware classifiers. Extensive experiments validate that integrating epistemic awareness into deep learning not only mitigates the risks associated with overconfident predictions but also lays the foundation for a paradigm shift in artificial intelligence, where the ability to 'know when it does not know' becomes a hallmark of robust and dependable systems. The title encapsulates the core philosophy of this work, emphasizing that true intelligence involves recognizing and managing the limits of one's own knowledge.

ABSTRACT Automated dysarthria detection and severity assessment from speech have attracted significant research attention due to their potential clinical impact. Despite rapid progress in acoustic modeling and deep learning, models still fall short of human expert performance. This manuscript provides a comprehensive analysis of the reasons behind this gap, emphasizing a conceptual divergence we term the "perceptual-statistical gap". We detail human expert perceptual processes, survey machine learning representations and methods, review existing literature on feature sets and modeling strategies, and present a theoretical analysis of limits imposed by label noise and inter-rater variability. We further outline practical strategies to narrow the gap, perceptually motivated features, self-supervised pre-training, ASR-informed objectives, multimodal fusion, human-in-the-loop training, and explainability methods. Finally, we propose experimental protocols and evaluation metrics aligned with clinical goals to guide future research toward clinically reliable and interpretable dysarthria assessment tools. Index T erms-- Dysarthria assessment, speech intelligibility, perceptual modeling, machine learning, human-AI gap, explainable AI, self-supervised learning 1. INTRODUCTION Dysarthria comprises a set of motor speech disorders resulting from neurological impairment such as Parkinson's disease, amyotrophic lateral sclerosis (ALS), stroke, or cerebral palsy that affect speech motor control and coordination [1].