arXiv subjects

Hien V. Nguyen

Publications and source records attributed to Hien V. Nguyen.

11 recordsLinked to original sources

arXiv2026

PolypSteer: Counterfactual Endoscopic Synthesis via Training-Free Activation Steering

Generative diffusion models are increasingly used for medical imaging data augmentation, but text prompting cannot produce causal training data. Re-prompting rerolls the entire generation trajectory, altering anatomy, texture, and background. Inversion-based editing methods introduce reconstruction error that causes structural drift. We propose PolypSteer, a training-free activation-steering framework for endoscopic synthesis. PolypSteer identifies a pathology vector for each contrastive prompt pair in the cross-attention layers of a diffusion transformer. At inference time, it steers image activations along this vector, generating counterfactual pairs from scratch where the only difference is the steered concept. All other structure is preserved by construction. We evaluate PolypSteer across three experiments on Kvasir v3 and HyperKvasir. On counterfactual generation across three clinical concept pairs, PolypSteer achieves flip rates of 0.800, 0.925, and 0.950, outperforming the best inversion-based baseline in both concept flip rate and structural preservation. On dye disentanglement, PolypSteer achieves 75% dye removal against 20% (PnP) and 10% (h-Edit). On downstream polyp detection, augmenting with PolypSteer counterfactual pairs achieves ViT AUC of 0.9755 versus 0.9083 for quantity-matched re-prompting, confirming that counterfactual structure drives the gain. Code is at link https://github.com/UARK-AICV/PolypSteer

cs.CV↗

arXiv2026

CodeCytos: AI-assisted spatial molecular imaging analysis via code-augmented agent action space

Conventional tissue image analysis software provides foundational capabilities for cellular analysis, including segmentation, basic morphological feature extraction, and spatial organization analysis. However, these tools often require manual intervention and are not well integrated with code-driven automation, limiting efficiency and scalability for complex spatial tissue studies. In addition, they offer limited flexibility for custom analyses, as they typically support only a fixed set of pre-implemented spatial cellular features. To address these limitations, we propose CodeCytos, a coding-based reasoning agent framework that enables dynamic, programmable interaction with spatial molecular imaging data to improve automation and customization. CodeCytos is designed to streamline the exploration of custom spatial cellular features and adapt to diverse research needs. We demonstrate its utility through case studies on four expert-curated datasets from distinct tissue types: frontal cortex, non-small-cell lung cancer, pancreas, and tonsil. We evaluate CodeCytos under a realistic minimal prompt setting, where bioscientists pose simple questions without task-specific instructions or contextual information about spatial cellular analysis, and benchmark multiple LLM backbones with strong coding capabilities. We further show that incorporating tailored, domain-agnostic few-shot in-context coding-reasoning examples (randomly sampled demonstrations outside the spatial analysis domain) can substantially improve performance without requiring costly, expert-crafted in-domain demonstrations. Overall, CodeCytos outperforms baseline approaches, highlighting the potential of code-action agents to assist with custom feature exploration in spatial molecular imaging and to accelerate biomarker discovery.

cs.CV↗

arXiv2026

Self-Auditing Parameter-Efficient Fine-Tuning for Few-Shot 3D Medical Image Segmentation

Adapting foundation models to new clinical sites remains challenging in practice. Domain shift and scarce annotations must be handled by experts, yet many clinical groups do not have ready access to skilled AI engineers to tune adapter designs and training recipes. As a result, adaptation cycles can stretch from weeks to months, particularly in few-shot settings. Existing PEFT methods either require manual adapter configuration or automated searches that are computationally infeasible in few-shot 3D settings. We propose SEA-PEFT (SElf-Auditing Parameter-Efficient Fine-Tuning) to automate this process. SEA-PEFT treats adapter configuration as an online allocation problem solved during fine-tuning rather than through manual, fixed-topology choices. SEA-PEFT uses a search-audit-allocate loop that trains active adapters, estimates each adapter's Dice utility by momentarily toggling it off, and then reselects the active set under a parameter budget using a greedy knapsack allocator. Exponential Moving Average and Interquartile Range smoothing, together with a Finite-State Ranking controller, stabilize the loop and improve reliability in high-noise few-shot regimes. On TotalSegmentator and FLARE'22, SEA-PEFT improves mean Dice by 2.4--2.8 points over the strongest fixed-topology PEFT baselines across 1/5/10-shot settings while training <1% of parameters. For reproducibility purposes, we made our code publicly available at https://github.com/tsly123/SEA_PEFT

cs.LG↗

arXiv2026

Revisiting Invariant Learning for Out-of-Domain Generalization on Multi-Site Mammogram Datasets

Achieving health equity in Artificial Intelligence (AI) requires diagnostic models that maintain reliability across diverse populations. However, breast cancer screening systems frequently suffer from domain overfitting, degrading significantly when deployed to varying demographics. While Invariant Learning algorithms aim to mitigate this by suppressing site-specific correlations, their efficacy in medical imaging remains underexplored. This study comprehensively evaluates domain generalization techniques for mammography. We constructed a multi-source training environment aggregating datasets from the United States (CBIS-DDSM, EMBED), Portugal (INbreast, BCDR), and Cyprus (BMCD). To assess global generalizability, we evaluated performance on unseen cohorts from Egypt (CDD-CESM) and Sweden (CSAW-CC). We benchmarked Invariant Risk Minimization (IRM) and Variance Risk Extrapolation (VREx) against a rigorously optimized Empirical Risk Minimization (ERM) baseline. Contrary to expectations, standard ERM consistently outperformed specialized invariant mechanisms on out-of-domain testing. While VREx showed potential in stabilizing attention maps, invariant objectives proved unstable and prone to underfitting. We conclude that engineering equitable AI is currently best served by maximizing multi-national data diversity rather than relying on complex algorithmic invariance.

cs.CV↗

arXiv2026

Efficient Multi-scale Masked Autoencoders with Hybrid-Attention Mechanism for Breast Lesion Classification

Self-supervised learning (SSL) with Vision Transformers (ViT) has shown immense potential in medical image analysis. However, the quadratic complexity ($\mathcal{O}(N^2)$) of standard self-attention poses a severe barrier for high-resolution biomedical tasks, effectively excluding resource-constrained research labs from utilizing state-of-the-art models. To address this computational bottleneck without sacrificing diagnostic accuracy, we propose \textbf{MIRAM}, a Multi-scale Masked Autoencoder that leverages a \textbf{hybrid-attention mechanism}. Our architecture uniquely decouples semantic learning from detail reconstruction using a dual-decoder design: a standard transformer decoder captures global semantics at low resolution, while a linear-complexity decoder (comparing Linformer, Performer, and Nyströmformer) handles the computationally expensive high-resolution reconstruction. This reduces the complexity of the upscaling stage from quadratic to linear ($\mathcal{O}(N)$), enabling high-fidelity training on consumer-grade GPUs. We validate our approach on the CBIS-DDSM mammography dataset. Remarkably, our \textbf{Nyströmformer-based variant} achieves a classification accuracy of \textbf{61.0\%}, outperforming both standard MAE (58.9\%) and MoCo-v3 (60.2\%) while requiring significantly less memory. These results demonstrate that hybrid-attention architectures can democratize high-resolution medical AI, making powerful SSL accessible to researchers with limited hardware resources.

cs.CV↗

arXiv2024

Enhancing Parameter-Efficient Fine-Tuning of Vision Transformers through Frequency-Based Adaptation

Adapting vision transformer foundation models through parameter-efficient fine-tuning (PEFT) methods has become increasingly popular. These methods optimize a limited subset of parameters, enabling efficient adaptation without the need to fine-tune the entire model while still achieving competitive performance. However, traditional PEFT methods may limit the model's capacity to capture complex patterns, especially those associated with high-frequency spectra. This limitation becomes particularly problematic as existing research indicates that high-frequency features are crucial for distinguishing subtle image structures. To address this issue, we introduce FreqFit, a novel Frequency Fine-tuning module between ViT blocks to enhance model adaptability. FreqFit is simple yet surprisingly effective, and can be integrated with all existing PEFT methods to boost their performance. By manipulating features in the frequency domain, our approach allows models to capture subtle patterns more effectively. Extensive experiments on 24 datasets, using both supervised and self-supervised foundational models with various state-of-the-art PEFT methods, reveal that FreqFit consistently improves performance over the original PEFT methods with performance gains ranging from 1% to 16%. For instance, FreqFit-LoRA surpasses the performances of state-of-the-art baselines on CIFAR100 by more than 10% even without applying regularization or strong augmentation. For reproducibility purposes, the source code is available at https://github.com/tsly123/FreqFiT.

cs.CV↗

arXiv2023

Segmentation of diagnostic tissue compartments on whole slide images with renal thrombotic microangiopathies (TMAs)

The thrombotic microangiopathies (TMAs) manifest in renal biopsy histology with a broad spectrum of acute and chronic findings. Precise diagnostic criteria for a renal biopsy diagnosis of TMA are missing. As a first step towards a machine learning- and computer vision-based analysis of wholes slide images from renal biopsies, we trained a segmentation model for the decisive diagnostic kidney tissue compartments artery, arteriole, glomerulus on a set of whole slide images from renal biopsies with TMAs and Mimickers (distinct diseases with a similar nephropathological appearance as TMA like severe benign nephrosclerosis, various vasculitides, Bevacizumab-plug glomerulopathy, arteriolar light chain deposition disease). Our segmentation model combines a U-Net-based tissue detection with a Shifted windows-transformer architecture to reach excellent segmentation results for even the most severely altered glomeruli, arterioles and arteries, even on unseen staining domains from a different nephropathology lab. With accurate automatic segmentation of the decisive renal biopsy compartments in human renal vasculopathies, we have laid the foundation for large-scale compartment-specific machine learning and computer vision analysis of renal biopsy repositories with TMAs.

cs.CV↗

arXiv2022

Multiplexed Immunofluorescence Brain Image Analysis Using Self-Supervised Dual-Loss Adaptive Masked Autoencoder

Reliable large-scale cell detection and segmentation is the fundamental first step to understanding biological processes in the brain. The ability to phenotype cells at scale can accelerate preclinical drug evaluation and system-level brain histology studies. The impressive advances in deep learning offer a practical solution to cell image detection and segmentation. Unfortunately, categorizing cells and delineating their boundaries for training deep networks is an expensive process that requires skilled biologists. This paper presents a novel self-supervised Dual-Loss Adaptive Masked Autoencoder (DAMA) for learning rich features from multiplexed immunofluorescence brain images. DAMA's objective function minimizes the conditional entropy in pixel-level reconstruction and feature-level regression. Unlike existing self-supervised learning methods based on a random image masking strategy, DAMA employs a novel adaptive mask sampling strategy to maximize mutual information and effectively learn brain cell data. To the best of our knowledge, this is the first effort to develop a self-supervised learning method for multiplexed immunofluorescence brain images. Our extensive experiments demonstrate that DAMA features enable superior cell detection, segmentation, and classification performance without requiring many annotations.

cs.CV↗

arXiv2021

Multimodal Breast Lesion Classification Using Cross-Attention Deep Networks

Accurate breast lesion risk estimation can significantly reduce unnecessary biopsies and help doctors decide optimal treatment plans. Most existing computer-aided systems rely solely on mammogram features to classify breast lesions. While this approach is convenient, it does not fully exploit useful information in clinical reports to achieve the optimal performance. Would clinical features significantly improve breast lesion classification compared to using mammograms alone? How to handle missing clinical information caused by variation in medical practice? What is the best way to combine mammograms and clinical features? There is a compelling need for a systematic study to address these fundamental questions. This paper investigates several multimodal deep networks based on feature concatenation, cross-attention, and co-attention to combine mammograms and categorical clinical variables. We show that the proposed architectures significantly increase the lesion classification performance (average area under ROC curves from 0.89 to 0.94). We also evaluate the model when clinical variables are missing.

eess.IV↗

arXiv2021

Deep reinforcement learning in medical imaging: A literature review

Deep reinforcement learning (DRL) augments the reinforcement learning framework, which learns a sequence of actions that maximizes the expected reward, with the representative power of deep neural networks. Recent works have demonstrated the great potential of DRL in medicine and healthcare. This paper presents a literature review of DRL in medical imaging. We start with a comprehensive tutorial of DRL, including the latest model-free and model-based algorithms. We then cover existing DRL applications for medical imaging, which are roughly divided into three main categories: (I) parametric medical image analysis tasks including landmark detection, object/lesion detection, registration, and view plane localization; (ii) solving optimization tasks including hyperparameter tuning, selecting augmentation strategies, and neural architecture search; and (iii) miscellaneous applications including surgical gesture segmentation, personalized mobile health intervention, and computational model personalization. The paper concludes with discussions of future perspectives.

eess.IV↗

arXiv2019

DropConnect Is Effective in Modeling Uncertainty of Bayesian Deep Networks

Deep neural networks (DNNs) have achieved state-of-the-art performances in many important domains, including medical diagnosis, security, and autonomous driving. In these domains where safety is highly critical, an erroneous decision can result in serious consequences. While a perfect prediction accuracy is not always achievable, recent work on Bayesian deep networks shows that it is possible to know when DNNs are more likely to make mistakes. Knowing what DNNs do not know is desirable to increase the safety of deep learning technology in sensitive applications. Bayesian neural networks attempt to address this challenge. However, traditional approaches are computationally intractable and do not scale well to large, complex neural network architectures. In this paper, we develop a theoretical framework to approximate Bayesian inference for DNNs by imposing a Bernoulli distribution on the model weights. This method, called MC-DropConnect, gives us a tool to represent the model uncertainty with little change in the overall model structure or computational cost. We extensively validate the proposed algorithm on multiple network architectures and datasets for classification and semantic segmentation tasks. We also propose new metrics to quantify the uncertainty estimates. This enables an objective comparison between MC-DropConnect and prior approaches. Our empirical results demonstrate that the proposed framework yields significant improvement in both prediction accuracy and uncertainty estimation quality compared to the state of the art.

cs.LG↗