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Apr 15

TransICD: Transformer Based Code-wise Attention Model for Explainable ICD Coding

International Classification of Disease (ICD) coding procedure which refers to tagging medical notes with diagnosis codes has been shown to be effective and crucial to the billing system in medical sector. Currently, ICD codes are assigned to a clinical note manually which is likely to cause many errors. Moreover, training skilled coders also requires time and human resources. Therefore, automating the ICD code determination process is an important task. With the advancement of artificial intelligence theory and computational hardware, machine learning approach has emerged as a suitable solution to automate this process. In this project, we apply a transformer-based architecture to capture the interdependence among the tokens of a document and then use a code-wise attention mechanism to learn code-specific representations of the entire document. Finally, they are fed to separate dense layers for corresponding code prediction. Furthermore, to handle the imbalance in the code frequency of clinical datasets, we employ a label distribution aware margin (LDAM) loss function. The experimental results on the MIMIC-III dataset show that our proposed model outperforms other baselines by a significant margin. In particular, our best setting achieves a micro-AUC score of 0.923 compared to 0.868 of bidirectional recurrent neural networks. We also show that by using the code-wise attention mechanism, the model can provide more insights about its prediction, and thus it can support clinicians to make reliable decisions. Our code is available online (https://github.com/biplob1ly/TransICD)

  • 3 authors
·
Mar 28, 2021

Large-scale Robust Deep AUC Maximization: A New Surrogate Loss and Empirical Studies on Medical Image Classification

Deep AUC Maximization (DAM) is a new paradigm for learning a deep neural network by maximizing the AUC score of the model on a dataset. Most previous works of AUC maximization focus on the perspective of optimization by designing efficient stochastic algorithms, and studies on generalization performance of large-scale DAM on difficult tasks are missing. In this work, we aim to make DAM more practical for interesting real-world applications (e.g., medical image classification). First, we propose a new margin-based min-max surrogate loss function for the AUC score (named as AUC min-max-margin loss or simply AUC margin loss for short). It is more robust than the commonly used AUC square loss, while enjoying the same advantage in terms of large-scale stochastic optimization. Second, we conduct extensive empirical studies of our DAM method on four difficult medical image classification tasks, namely (i) classification of chest x-ray images for identifying many threatening diseases, (ii) classification of images of skin lesions for identifying melanoma, (iii) classification of mammogram for breast cancer screening, and (iv) classification of microscopic images for identifying tumor tissue. Our studies demonstrate that the proposed DAM method improves the performance of optimizing cross-entropy loss by a large margin, and also achieves better performance than optimizing the existing AUC square loss on these medical image classification tasks. Specifically, our DAM method has achieved the 1st place on Stanford CheXpert competition on Aug. 31, 2020. To the best of our knowledge, this is the first work that makes DAM succeed on large-scale medical image datasets. We also conduct extensive ablation studies to demonstrate the advantages of the new AUC margin loss over the AUC square loss on benchmark datasets. The proposed method is implemented in our open-sourced library LibAUC (www.libauc.org).

  • 4 authors
·
Dec 5, 2020

Explainable Multi-Modal Deep Learning for Automatic Detection of Lung Diseases from Respiratory Audio Signals

Respiratory diseases remain major global health challenges, and traditional auscultation is often limited by subjectivity, environmental noise, and inter-clinician variability. This study presents an explainable multimodal deep learning framework for automatic lung-disease detection using respiratory audio signals. The proposed system integrates two complementary representations: a spectral-temporal encoder based on a CNN-BiLSTM Attention architecture, and a handcrafted acoustic-feature encoder capturing physiologically meaningful descriptors such as MFCCs, spectral centroid, spectral bandwidth, and zero-crossing rate. These branches are combined through late-stage fusion to leverage both data-driven learning and domain-informed acoustic cues. The model is trained and evaluated on the Asthma Detection Dataset Version 2 using rigorous preprocessing, including resampling, normalization, noise filtering, data augmentation, and patient-level stratified partitioning. The study achieved strong generalization with 91.21% accuracy, 0.899 macro F1-score, and 0.9866 macro ROC-AUC, outperforming all ablated variants. An ablation study confirms the importance of temporal modeling, attention mechanisms, and multimodal fusion. The framework incorporates Grad-CAM, Integrated Gradients, and SHAP, generating interpretable spectral, temporal, and feature-level explanations aligned with known acoustic biomarkers to build clinical transparency. The findings demonstrate the framework's potential for telemedicine, point-of-care diagnostics, and real-world respiratory screening.

  • 4 authors
·
Nov 29, 2025

Rayleigh Quotient Graph Neural Networks for Graph-level Anomaly Detection

Graph-level anomaly detection has gained significant attention as it finds applications in various domains, such as cancer diagnosis and enzyme prediction. However, existing methods fail to capture the spectral properties of graph anomalies, resulting in unexplainable framework design and unsatisfying performance. In this paper, we re-investigate the spectral differences between anomalous and normal graphs. Our main observation shows a significant disparity in the accumulated spectral energy between these two classes. Moreover, we prove that the accumulated spectral energy of the graph signal can be represented by its Rayleigh Quotient, indicating that the Rayleigh Quotient is a driving factor behind the anomalous properties of graphs. Motivated by this, we propose Rayleigh Quotient Graph Neural Network (RQGNN), the first spectral GNN that explores the inherent spectral features of anomalous graphs for graph-level anomaly detection. Specifically, we introduce a novel framework with two components: the Rayleigh Quotient learning component (RQL) and Chebyshev Wavelet GNN with RQ-pooling (CWGNN-RQ). RQL explicitly captures the Rayleigh Quotient of graphs and CWGNN-RQ implicitly explores the spectral space of graphs. Extensive experiments on 10 real-world datasets show that RQGNN outperforms the best rival by 6.74% in Macro-F1 score and 1.44% in AUC, demonstrating the effectiveness of our framework. Our code is available at https://github.com/xydong127/RQGNN.

  • 3 authors
·
Oct 4, 2023

Will It Survive? Deciphering the Fate of AI-Generated Code in Open Source

The integration of AI agents as coding assistants into software development has raised questions about the long-term viability of AI agent-generated code. A prevailing hypothesis within the software engineering community suggests this code is "disposable", meaning it is merged quickly but discarded shortly thereafter. If true, organizations risk shifting maintenance burden from generation to post-deployment remediation. We investigate this hypothesis through survival analysis of 201 open-source projects, tracking over 200,000 code units authored by AI agents versus humans. Contrary to the disposable code narrative, agent-authored code survives significantly longer: at the line level, it exhibits a 15.8 percentage-point lower modification rate and 16% lower hazard of modification (HR = 0.842, p < 0.001). However, modification profiles differ. Agent-authored code shows modestly elevated corrective rates (26.3% vs. 23.0%), while human code shows higher adaptive rates. However, the effect sizes are small (Cramér's V = 0.116), and per-agent variation exceeds the agent-human gap. Turning to prediction, textual features can identify modification-prone code (AUC-ROC = 0.671), but predicting when modifications occur remains challenging (Macro F1 = 0.285), suggesting timing depends on external organizational dynamics. The bottleneck for agent-generated code may not be generation quality, but the organizational practices that govern its long-term evolution.

  • 2 authors
·
Jan 23

STARN-GAT: A Multi-Modal Spatio-Temporal Graph Attention Network for Accident Severity Prediction

Accurate prediction of traffic accident severity is critical for improving road safety, optimizing emergency response strategies, and informing the design of safer transportation infrastructure. However, existing approaches often struggle to effectively model the intricate interdependencies among spatial, temporal, and contextual variables that govern accident outcomes. In this study, we introduce STARN-GAT, a Multi-Modal Spatio-Temporal Graph Attention Network, which leverages adaptive graph construction and modality-aware attention mechanisms to capture these complex relationships. Unlike conventional methods, STARN-GAT integrates road network topology, temporal traffic patterns, and environmental context within a unified attention-based framework. The model is evaluated on the Fatality Analysis Reporting System (FARS) dataset, achieving a Macro F1-score of 85 percent, ROC-AUC of 0.91, and recall of 81 percent for severe incidents. To ensure generalizability within the South Asian context, STARN-GAT is further validated on the ARI-BUET traffic accident dataset, where it attains a Macro F1-score of 0.84, recall of 0.78, and ROC-AUC of 0.89. These results demonstrate the model's effectiveness in identifying high-risk cases and its potential for deployment in real-time, safety-critical traffic management systems. Furthermore, the attention-based architecture enhances interpretability, offering insights into contributing factors and supporting trust in AI-assisted decision-making. Overall, STARN-GAT bridges the gap between advanced graph neural network techniques and practical applications in road safety analytics.

  • 2 authors
·
Jul 27, 2025

MOOZY: A Patient-First Foundation Model for Computational Pathology

Computational pathology needs whole-slide image (WSI) foundation models that transfer across diverse clinical tasks, yet current approaches remain largely slide-centric, often depend on private data and expensive paired-report supervision, and do not explicitly model relationships among multiple slides from the same patient. We present MOOZY, a patient-first pathology foundation model in which the patient case, not the individual slide, is the core unit of representation. MOOZY explicitly models dependencies across all slides from the same patient via a case transformer during pretraining, combining multi-stage open self-supervision with scaled low-cost task supervision. In Stage 1, we pretrain a vision-only slide encoder on 77,134 public slide feature grids using masked self-distillation. In Stage 2, we align these representations with clinical semantics using a case transformer and multi-task supervision over 333 tasks from 56 public datasets, including 205 classification and 128 survival tasks across four endpoints. Across eight held-out tasks with five-fold frozen-feature probe evaluation, MOOZY achieves best or tied-best performance on most metrics and improves macro averages over TITAN by +7.37%, +5.50%, and +7.83% and over PRISM by +8.83%, +10.70%, and +9.78% for weighted F1, weighted ROC-AUC, and balanced accuracy, respectively. MOOZY is also parameter efficient with 85.77M parameters, 14x smaller than GigaPath. These results demonstrate that open, reproducible patient-level pretraining yields transferable embeddings, providing a practical path toward scalable patient-first histopathology foundation models.