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Hieu Pham

Publications and source records attributed to Hieu Pham.

At least 19 recordsLinked to original sources
arXiv2026

When Oracle Conditioning Misleads Deployment: Conditioning-Availability Bias in Echocardiographic Segmentation

Conditional segmentation models may be trained and evaluated with auxiliary signals cleaner than those available at deployment. We study this protocol-level manifestation of shortcut learning and auxiliary-variable shift in phase-conditioned echocardiographic segmentation. The complementary gap pair measures loss on the deployable oracle-estimated pathway and probes sensitivity on the oracle-random pathway. On held-out CAMUS data, one strong-cyclic, oracle-selected run fails severely with estimated phase, while sensitivity to incorrect phase persists across three runs. On EchoNet-Dynamic, the current estimator remains usable, but random-phase testing reveals strong latent sensitivity. Deployment-aware checkpoint selection and phase perturbation reduce both gaps with little change in mean Dice. Exploratory subgroup analyses quantify variation across measured strata, and a downstream ejection fraction (EF) audit shows that recovering segmentation does not necessarily recover EF error or signed bias. Together, the gaps test whether oracle-conditioned performance survives the inference pathway actually available at deployment.

cs.CV↗
arXiv2026

When Measurement Conventions Masquerade as Calibration Gains in Cardiac Digital Twins

Cardiac digital twins convert clinical images into physiological measurements through observation operators, yet calibration studies often assume a fixed reference convention. Across four shared-backbone echocardiographic EF front-ends, phase conditioning appears to remove CAMUS baseline bias. Matched-reference analysis rejects this gain: singleplane ground-truth EF error is statistically indistinguishable across models, while single-plane ground-truth EF exceeds CAMUS biplane clinical EF by +6.30 points, explaining nearly all baseline bias. A prespecified EchoNet-Dynamic replication, with released data and our extractor aligned to the apical four-chamber plane, removes baseline overestimation and reverses the CAMUS ranking. We also quantify haemodynamic effects, conformal residual-width budgets, and EF-stratum changes, yielding a Convention-Aware EF Audit protocol that separates genuine observation operator calibration from measurement artefacts. GitHub: EjectionFraction-Bias-in-Cardiac-Digital-Twin.git

cs.CV↗
arXiv2026

Benchmarking the Robustness of Foundation Models for Mammography under Domain Shift

Foundation models are increasingly used as image feature extractors for mammography, but their robustness under external domain shift remains unclear. We benchmark 15 foundation-model backbones across breast density, BI-RADS severity, and cancer status using a unified frozen-backbone linear-probe protocol, training on 3 source datasets and evaluating on 12 task-compatible out-of-distribution (OOD) datasets after label harmonization. Mammography-specific vision-language models (Mammo-FM and MaMA) provide the strongest mean OOD performance, but robustness is not explained by mammography exposure alone. DINOv3 remains a competitive vision-only baseline, and mammography-adapted pretraining does not consistently improve generalization. Dataset-level analysis further shows that even leading models show heterogeneous performance across datasets. Feature-space inspection reveals that useful representations can preserve clinical signal while retaining dataset and acquisition structure. These findings highlight dataset-level OOD evaluation as a central criterion for assessing mammography representations. Our code is publicly available: https://github.com/biomedia-mira/mammo-ood.

cs.CV↗
arXiv2025

Brain Network Analysis Based on Fine-tuned Self-supervised Model for Brain Disease Diagnosis

Functional brain network analysis has become an indispensable tool for brain disease analysis. It is profoundly impacted by deep learning methods, which can characterize complex connections between ROIs. However, the research on foundation models of brain network is limited and constrained to a single dimension, which restricts their extensive application in neuroscience. In this study, we propose a fine-tuned brain network model for brain disease diagnosis. It expands brain region representations across multiple dimensions based on the original brain network model, thereby enhancing its generalizability. Our model consists of two key modules: (1)an adapter module that expands brain region features across different dimensions. (2)a fine-tuned foundation brain network model, based on self-supervised learning and pre-trained on fMRI data from thousands of participants. Specifically, its transformer block is able to effectively extract brain region features and compute the inter-region associations. Moreover, we derive a compact latent representation of the brain network for brain disease diagnosis. Our downstream experiments in this study demonstrate that the proposed model achieves superior performance in brain disease diagnosis, which potentially offers a promising approach in brain network analysis research.

eess.IV↗
arXiv2025

High-Fidelity Functional Ultrasound Reconstruction via A Visual Auto-Regressive Framework

Functional ultrasound (fUS) imaging provides exceptional spatiotemporal resolution for neurovascular mapping, yet its practical application is significantly hampered by critical challenges. Foremost among these are data scarcity, arising from ethical considerations and signal degradation through the cranium, which collectively limit dataset diversity and compromise the fairness of downstream machine learning models.

eess.IV↗
arXiv2025

Semise: Semi-supervised learning for severity representation in medical image

This paper introduces SEMISE, a novel method for representation learning in medical imaging that combines self-supervised and supervised learning. By leveraging both labeled and augmented data, SEMISE addresses the challenge of data scarcity and enhances the encoder's ability to extract meaningful features. This integrated approach leads to more informative representations, improving performance on downstream tasks. As result, our approach achieved a 12% improvement in classification and a 3% improvement in segmentation, outperforming existing methods. These results demonstrate the potential of SIMESE to advance medical image analysis and offer more accurate solutions for healthcare applications, particularly in contexts where labeled data is limited.

eess.IV↗
arXiv2025

Quantitative Gait Analysis from Single RGB Videos Using a Dual-Input Transformer-Based Network

Gait and movement analysis have become a well-established clinical tool for diagnosing health conditions, monitoring disease progression for a wide spectrum of diseases, and to implement and assess treatment, surgery and or rehabilitation interventions. However, quantitative motion assessment remains limited to costly motion capture systems and specialized personnel, restricting its accessibility and broader application. Recent advancements in deep neural networks have enabled quantitative movement analysis using single-camera videos, offering an accessible alternative to conventional motion capture systems. In this paper, we present an efficient approach for clinical gait analysis through a dual-pattern input convolutional Transformer network. The proposed system leverages a dual-input Transformer model to estimate essential gait parameters from single RGB videos captured by a single-view camera. The system demonstrates high accuracy in estimating critical metrics such as the gait deviation index (GDI), knee flexion angle, step length, and walking cadence, validated on a dataset of individuals with movement disorders. Notably, our approach surpasses state-of-the-art methods in various scenarios, using fewer resources and proving highly suitable for clinical application, particularly in resource-constrained environments.

cs.CV↗
arXiv2024

D-SarcNet: A Dual-stream Deep Learning Framework for Automatic Analysis of Sarcomere Structures in Fluorescently Labeled hiPSC-CMs

Human-induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) are a powerful tool in advancing cardiovascular research and clinical applications. The maturation of sarcomere organization in hiPSC-CMs is crucial, as it supports the contractile function and structural integrity of these cells. Traditional methods for assessing this maturation like manual annotation and feature extraction are labor-intensive, time-consuming, and unsuitable for high-throughput analysis. To address this, we propose D-SarcNet, a dual-stream deep learning framework that takes fluorescent hiPSC-CM single-cell images as input and outputs the stage of the sarcomere structural organization on a scale from 1.0 to 5.0. The framework also integrates Fast Fourier Transform (FFT), deep learning-generated local patterns, and gradient magnitude to capture detailed structural information at both global and local levels. Experiments on a publicly available dataset from the Allen Institute for Cell Science show that the proposed approach not only achieves a Spearman correlation of 0.868 marking a 3.7% improvement over the previous state-of-the-art but also significantly enhances other key performance metrics, including MSE, MAE, and R2 score. Beyond establishing a new state-of-the-art in sarcomere structure assessment from hiPSC-CM images, our ablation studies highlight the significance of integrating global and local information to enhance deep learning networks ability to discern and learn vital visual features of sarcomere structure.

cs.CV↗
arXiv2024

SarcNet: A Novel AI-based Framework to Automatically Analyze and Score Sarcomere Organizations in Fluorescently Tagged hiPSC-CMs

Quantifying sarcomere structure organization in human-induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) is crucial for understanding cardiac disease pathology, improving drug screening, and advancing regenerative medicine. Traditional methods, such as manual annotation and Fourier transform analysis, are labor-intensive, error-prone, and lack high-throughput capabilities. In this study, we present a novel deep learning-based framework that leverages cell images and integrates cell features to automatically evaluate the sarcomere structure of hiPSC-CMs from the onset of differentiation. This framework overcomes the limitations of traditional methods through automated, high-throughput analysis, providing consistent, reliable results while accurately detecting complex sarcomere patterns across diverse samples. The proposed framework contains the SarcNet, a linear layers-added ResNet-18 module, to output a continuous score ranging from one to five that captures the level of sarcomere structure organization. It is trained and validated on an open-source dataset of hiPSC-CMs images with the endogenously GFP-tagged alpha-actinin-2 structure developed by the Allen Institute for Cell Science (AICS). SarcNet achieves a Spearman correlation of 0.831 with expert evaluations, demonstrating superior performance and an improvement of 0.075 over the current state-of-the-art approach, which uses Linear Regression. Our results also show a consistent pattern of increasing organization from day 18 to day 32 of differentiation, aligning with expert evaluations. By integrating the quantitative features calculated directly from the images with the visual features learned during the deep learning model, our framework offers a more comprehensive and accurate assessment, thereby enhancing the further utility of hiPSC-CMs in medical research and therapy development.

cs.CV↗
arXiv2024

ConPro: Learning Severity Representation for Medical Images using Contrastive Learning and Preference Optimization

Understanding the severity of conditions shown in images in medical diagnosis is crucial, serving as a key guide for clinical assessment, treatment, as well as evaluating longitudinal progression. This paper proposes Con- PrO: a novel representation learning method for severity assessment in medical images using Contrastive learningintegrated Preference Optimization. Different from conventional contrastive learning methods that maximize the distance between classes, ConPrO injects into the latent vector the distance preference knowledge between various severity classes and the normal class. We systematically examine the key components of our framework to illuminate how contrastive prediction tasks acquire valuable representations. We show that our representation learning framework offers valuable severity ordering in the feature space while outperforming previous state-of-the-art methods on classification tasks. We achieve a 6% and 20% relative improvement compared to a supervised and a self-supervised baseline, respectively. In addition, we derived discussions on severity indicators and related applications of preference comparison in the medical domain.

cs.CV↗
arXiv2023

DoReMi: Optimizing Data Mixtures Speeds Up Language Model Pretraining

The mixture proportions of pretraining data domains (e.g., Wikipedia, books, web text) greatly affect language model (LM) performance. In this paper, we propose Domain Reweighting with Minimax Optimization (DoReMi), which first trains a small proxy model using group distributionally robust optimization (Group DRO) over domains to produce domain weights (mixture proportions) without knowledge of downstream tasks. We then resample a dataset with these domain weights and train a larger, full-sized model. In our experiments, we use DoReMi on a 280M-parameter proxy model to set the domain weights for training an 8B-parameter model (30x larger) more efficiently. On The Pile, DoReMi improves perplexity across all domains, even when it downweights a domain. DoReMi improves average few-shot downstream accuracy by 6.5% points over a baseline model trained using The Pile's default domain weights and reaches the baseline accuracy with 2.6x fewer training steps. On the GLaM dataset, DoReMi, which has no knowledge of downstream tasks, even matches the performance of using domain weights tuned on downstream tasks.

cs.CL↗
arXiv2023

MixupE: Understanding and Improving Mixup from Directional Derivative Perspective

Mixup is a popular data augmentation technique for training deep neural networks where additional samples are generated by linearly interpolating pairs of inputs and their labels. This technique is known to improve the generalization performance in many learning paradigms and applications. In this work, we first analyze Mixup and show that it implicitly regularizes infinitely many directional derivatives of all orders. Based on this new insight, we propose an improved version of Mixup, theoretically justified to deliver better generalization performance than the vanilla Mixup. To demonstrate the effectiveness of the proposed method, we conduct experiments across various domains such as images, tabular data, speech, and graphs. Our results show that the proposed method improves Mixup across multiple datasets using a variety of architectures, for instance, exhibiting an improvement over Mixup by 0.8% in ImageNet top-1 accuracy.

cs.LG↗
arXiv2023

BG-GAN: Generative AI Enable Representing Brain Structure-Function Connections for Alzheimer's Disease

The relationship between brain structure and function is critical for revealing the pathogenesis of brain disorders, including Alzheimer's disease (AD). However, mapping brain structure to function connections is a very challenging task. In this work, a bidirectional graph generative adversarial network (BG-GAN) is proposed to represent brain structure-function connections. Specifically, by designing a module incorporating inner graph convolution network (InnerGCN), the generators of BG-GAN can employ features of direct and indirect brain regions to learn the mapping function between the structural domain and the functional domain. Besides, a new module named Balancer is designed to counterpoise the optimization between generators and discriminators. By introducing the Balancer into BG-GAN, both the structural generator and functional generator can not only alleviate the issue of mode collapse but also learn complementarity of structural and functional features. Experimental results using the Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset show that both generated structure and function connections can improve the identification accuracy of AD. The experimental findings suggest that the relationship between brain structure and function is not a complete one-to-one correspondence. They also suggest that brain structure is the basis of brain function, and the strong structural connections are majorly accompanied by strong functional connections.

cs.AI↗
arXiv2023

SG-GAN: Fine Stereoscopic-Aware Generation for 3D Brain Point Cloud Up-sampling from a Single Image

In minimally-invasive brain surgeries with indirect and narrow operating environments, 3D brain reconstruction is crucial. However, as requirements of accuracy for some new minimally-invasive surgeries (such as brain-computer interface surgery) are higher and higher, the outputs of conventional 3D reconstruction, such as point cloud (PC), are facing the challenges that sample points are too sparse and the precision is insufficient. On the other hand, there is a scarcity of high-density point cloud datasets, which makes it challenging to train models for direct reconstruction of high-density brain point clouds. In this work, a novel model named stereoscopic-aware graph generative adversarial network (SG-GAN) with two stages is proposed to generate fine high-density PC conditioned on a single image. The Stage-I GAN sketches the primitive shape and basic structure of the organ based on the given image, yielding Stage-I point clouds. The Stage-II GAN takes the results from Stage-I and generates high-density point clouds with detailed features. The Stage-II GAN is capable of correcting defects and restoring the detailed features of the region of interest (ROI) through the up-sampling process. Furthermore, a parameter-free-attention-based free-transforming module is developed to learn the efficient features of input, while upholding a promising performance. Comparing with the existing methods, the SG-GAN model shows superior performance in terms of visual quality, objective measurements, and performance in classification, as demonstrated by comprehensive results measured by several evaluation metrics including PC-to-PC error and Chamfer distance.

eess.IV↗
arXiv2023

Symbolic Discovery of Optimization Algorithms

We present a method to formulate algorithm discovery as program search, and apply it to discover optimization algorithms for deep neural network training. We leverage efficient search techniques to explore an infinite and sparse program space. To bridge the large generalization gap between proxy and target tasks, we also introduce program selection and simplification strategies. Our method discovers a simple and effective optimization algorithm, $\textbf{Lion}$ ($\textit{Evo$\textbf{L}$ved S$\textbf{i}$gn M$\textbf{o}$me$\textbf{n}$tum}$). It is more memory-efficient than Adam as it only keeps track of the momentum. Different from adaptive optimizers, its update has the same magnitude for each parameter calculated through the sign operation. We compare Lion with widely used optimizers, such as Adam and Adafactor, for training a variety of models on different tasks. On image classification, Lion boosts the accuracy of ViT by up to 2% on ImageNet and saves up to 5x the pre-training compute on JFT. On vision-language contrastive learning, we achieve 88.3% $\textit{zero-shot}$ and 91.1% $\textit{fine-tuning}$ accuracy on ImageNet, surpassing the previous best results by 2% and 0.1%, respectively. On diffusion models, Lion outperforms Adam by achieving a better FID score and reducing the training compute by up to 2.3x. For autoregressive, masked language modeling, and fine-tuning, Lion exhibits a similar or better performance compared to Adam. Our analysis of Lion reveals that its performance gain grows with the training batch size. It also requires a smaller learning rate than Adam due to the larger norm of the update produced by the sign function. Additionally, we examine the limitations of Lion and identify scenarios where its improvements are small or not statistically significant. Lion is also successfully deployed in production systems such as Google search ads CTR model.

cs.LG↗
arXiv2023

Multimodal contrastive learning for diagnosing cardiovascular diseases from electrocardiography (ECG) signals and patient metadata

This work discusses the use of contrastive learning and deep learning for diagnosing cardiovascular diseases from electrocardiography (ECG) signals. While the ECG signals usually contain 12 leads (channels), many healthcare facilities and devices lack access to all these 12 leads. This raises the problem of how to use only fewer ECG leads to produce meaningful diagnoses with high performance. We introduce a simple experiment to test whether contrastive learning can be applied to this task. More specifically, we added the similarity between the embedding vectors when the 12 leads signal and the fewer leads ECG signal to the loss function to bring these representations closer together. Despite its simplicity, this has been shown to have improved the performance of diagnosing with all lead combinations, proving the potential of contrastive learning on this task.

eess.SP↗
arXiv2023

Combined Scaling for Zero-shot Transfer Learning

We present a combined scaling method - named BASIC - that achieves 85.7% top-1 accuracy on the ImageNet ILSVRC-2012 validation set without learning from any labeled ImageNet example. This accuracy surpasses best published similar models - CLIP and ALIGN - by 9.3%. Our BASIC model also shows significant improvements in robustness benchmarks. For instance, on 5 test sets with natural distribution shifts such as ImageNet-{A,R,V2,Sketch} and ObjectNet, our model achieves 84.3% top-1 average accuracy, only a small drop from its original ImageNet accuracy. To achieve these results, we scale up the contrastive learning framework of CLIP and ALIGN in three dimensions: data size, model size, and batch size. Our dataset has 6.6B noisy image-text pairs, which is 4x larger than ALIGN, and 16x larger than CLIP. Our largest model has 3B weights, which is 3.75x larger in parameters and 8x larger in FLOPs than ALIGN and CLIP. Finally, our batch size is 65536 which is 2x more than CLIP and 4x more than ALIGN. We encountered two main challenges with the scaling rules of BASIC. First, the main challenge with implementing the combined scaling rules of BASIC is the limited memory of accelerators, such as GPUs and TPUs. To overcome the memory limit, we propose two simple methods which make use of gradient checkpointing and model parallelism. Second, while increasing the dataset size and the model size has been the defacto method to improve the performance of deep learning models like BASIC, the effect of a large contrastive batch size on such contrastive-trained image-text models is not well-understood. To shed light on the benefits of large contrastive batch sizes, we develop a theoretical framework which shows that larger contrastive batch sizes lead to smaller generalization gaps for image-text models such as BASIC.

cs.LG↗