arXiv subjects

Dang Nguyen

Publications and source records attributed to Dang Nguyen.

At least 55 records · Page 3Linked to original sources

arXiv2024

Telepathology in Hematopathology Diagnostics: A Collaboration Between Ho Chi Minh City Oncology Hospital and University of Texas Health-McGovern Medical School

Digital pathology in the form of whole-slide-imaging has been used to support diagnostic consultation through telepathology. Previous studies have mostly addressed the technical aspects of telepathology and general pathology consultation. In this study, we focus on our experience at University of Texas Health-McGovern Medical School in Houston, Texas in providing hematopathology consultation to the Pathology Department at Ho Chi Minh City Oncology Hospital in Vietnam. Over a 32-month period, 71 hematopathology cases were submitted for telepathology. Diagnostic efficiency significantly improved with average turnaround times reduced by 30% compared to traditional on-site consultations with local pathologists using glass slides. A web site has been established in this telepathology project to retain information of the most recently discussed cases for further review after the teleconference. Telepathology provides an effective platform for real-time consultations, allowing remote subspecialty experts to interact with local pathologists for comprehensive case reviews. This process also fosters ongoing education, facilitating knowledge transfer in regions where specialized hematopathology expertise is limited.

cs.HC↗

arXiv2024

GPT-4V Cannot Generate Radiology Reports Yet

GPT-4V's purported strong multimodal abilities raise interests in using it to automate radiology report writing, but there lacks thorough evaluations. In this work, we perform a systematic evaluation of GPT-4V in generating radiology reports on two chest X-ray report datasets: MIMIC-CXR and IU X-Ray. We attempt to directly generate reports using GPT-4V through different prompting strategies and find that it fails terribly in both lexical metrics and clinical efficacy metrics. To understand the low performance, we decompose the task into two steps: 1) the medical image reasoning step of predicting medical condition labels from images; and 2) the report synthesis step of generating reports from (groundtruth) conditions. We show that GPT-4V's performance in image reasoning is consistently low across different prompts. In fact, the distributions of model-predicted labels remain constant regardless of which groundtruth conditions are present on the image, suggesting that the model is not interpreting chest X-rays meaningfully. Even when given groundtruth conditions in report synthesis, its generated reports are less correct and less natural-sounding than a finetuned LLaMA-2. Altogether, our findings cast doubt on the viability of using GPT-4V in a radiology workflow.

cs.CY↗

arXiv2024

Generating Realistic Tabular Data with Large Language Models

While most generative models show achievements in image data generation, few are developed for tabular data generation. Recently, due to success of large language models (LLM) in diverse tasks, they have also been used for tabular data generation. However, these methods do not capture the correct correlation between the features and the target variable, hindering their applications in downstream predictive tasks. To address this problem, we propose a LLM-based method with three important improvements to correctly capture the ground-truth feature-class correlation in the real data. First, we propose a novel permutation strategy for the input data in the fine-tuning phase. Second, we propose a feature-conditional sampling approach to generate synthetic samples. Finally, we generate the labels by constructing prompts based on the generated samples to query our fine-tuned LLM. Our extensive experiments show that our method significantly outperforms 10 SOTA baselines on 20 datasets in downstream tasks. It also produces highly realistic synthetic samples in terms of quality and diversity. More importantly, classifiers trained with our synthetic data can even compete with classifiers trained with the original data on half of the benchmark datasets, which is a significant achievement in tabular data generation.

cs.LG↗

arXiv2024

Robust Transfer Learning for Active Level Set Estimation with Locally Adaptive Gaussian Process Prior

The objective of active level set estimation for a black-box function is to precisely identify regions where the function values exceed or fall below a specified threshold by iteratively performing function evaluations to gather more information about the function. This becomes particularly important when function evaluations are costly, drastically limiting our ability to acquire large datasets. A promising way to sample-efficiently model the black-box function is by incorporating prior knowledge from a related function. However, this approach risks slowing down the estimation task if the prior knowledge is irrelevant or misleading. In this paper, we present a novel transfer learning method for active level set estimation that safely integrates a given prior knowledge while constantly adjusting it to guarantee a robust performance of a level set estimation algorithm even when the prior knowledge is irrelevant. We theoretically analyze this algorithm to show that it has a better level set convergence compared to standard transfer learning approaches that do not make any adjustment to the prior. Additionally, extensive experiments across multiple datasets confirm the effectiveness of our method when applied to various different level set estimation algorithms as well as different transfer learning scenarios.

cs.LG↗

arXiv2024

Variational Flow Models: Flowing in Your Style

We propose a systematic training-free method to transform the probability flow of a "linear" stochastic process characterized by the equation X_{t}=a_{t}X_{0}+σ_{t}X_{1} into a straight constant-speed (SC) flow, reminiscent of Rectified Flow. This transformation facilitates fast sampling along the original probability flow via the Euler method without training a new model of the SC flow. The flexibility of our approach allows us to extend our transformation to inter-convert two posterior flows of two distinct linear stochastic processes. Moreover, we can easily integrate high-order numerical solvers into the transformed SC flow, further enhancing the sampling accuracy and efficiency. Rigorous theoretical analysis and extensive experimental results substantiate the advantages of our framework. Our code is available at this [https://github.com/clarken92/VFM||link].

cs.LG↗

arXiv2024

Multi-Objective Linguistic Control of Large Language Models

Large language models (LLMs), despite their breakthroughs on many challenging benchmark tasks, lean to generate verbose responses and lack the controllability of output complexity, which is usually preferred by human users in practice. In this paper, we study how to precisely control multiple linguistic complexities of LLM output by finetuning using off-the-shelf data. To this end, we propose multi-control tuning (MCTune), which includes multiple linguistic complexity values of ground-truth responses as controls in the input for instruction tuning. We finetune LLaMA2-7B on Alpaca-GPT4 and WizardLM datasets. Evaluations on widely used benchmarks demonstrate that our method does not only improve LLMs' multi-complexity controllability substantially but also retains or even enhances the quality of the responses as a side benefit.

cs.CL↗

arXiv2024

Multi-level Phenotypic Models of Cardiovascular Disease and Obstructive Sleep Apnea Comorbidities: A Longitudinal Wisconsin Sleep Cohort Study

Cardiovascular diseases (CVDs) are notably prevalent among patients with obstructive sleep apnea (OSA), posing unique challenges in predicting CVD progression due to the intricate interactions of comorbidities. Traditional models typically lack the necessary dynamic and longitudinal scope to accurately forecast CVD trajectories in OSA patients. This study introduces a novel multi-level phenotypic model to analyze the progression and interplay of these conditions over time, utilizing data from the Wisconsin Sleep Cohort, which includes 1,123 participants followed for decades. Our methodology comprises three advanced steps: (1) Conducting feature importance analysis through tree-based models to underscore critical predictive variables like total cholesterol, low-density lipoprotein (LDL), and diabetes. (2) Developing a logistic mixed-effects model (LGMM) to track longitudinal transitions and pinpoint significant factors, which displayed a diagnostic accuracy of 0.9556. (3) Implementing t-distributed Stochastic Neighbor Embedding (t-SNE) alongside Gaussian Mixture Models (GMM) to segment patient data into distinct phenotypic clusters that reflect varied risk profiles and disease progression pathways. This phenotypic clustering revealed two main groups, with one showing a markedly increased risk of major adverse cardiovascular events (MACEs), underscored by the significant predictive role of nocturnal hypoxia and sympathetic nervous system activity from sleep data. Analysis of transitions and trajectories with t-SNE and GMM highlighted different progression rates within the cohort, with one cluster progressing more slowly towards severe CVD states than the other. This study offers a comprehensive understanding of the dynamic relationship between CVD and OSA, providing valuable tools for predicting disease onset and tailoring treatment approaches.

stat.AP↗

arXiv2024

Understanding the Robustness of Multi-modal Contrastive Learning to Distribution Shift

Recently, multimodal contrastive learning (MMCL) approaches, such as CLIP, have achieved a remarkable success in learning representations that are robust against distribution shift and generalize to new domains. Despite the empirical success, the mechanism behind learning such generalizable representations is not understood. In this work, we rigorously analyze this problem and uncover two mechanisms behind MMCL's robustness: \emph{intra-class contrasting}, which allows the model to learn features with a high variance, and \emph{inter-class feature sharing}, where annotated details in one class help learning other classes better. Both mechanisms prevent spurious features that are over-represented in the training data to overshadow the generalizable core features. This yields superior zero-shot classification accuracy under distribution shift. Furthermore, we theoretically demonstrate the benefits of using rich captions on robustness and explore the effect of annotating different types of details in the captions. We validate our theoretical findings through experiments, including a well-designed synthetic experiment and an experiment involving training CLIP models on MSCOCO/Conceptual Captions and evaluating them on shifted ImageNets.

cs.LG↗

arXiv2024

Active Level Set Estimation for Continuous Search Space with Theoretical Guarantee

A common problem encountered in many real-world applications is level set estimation where the goal is to determine the region in the function domain where the function is above or below a given threshold. When the function is black-box and expensive to evaluate, the level sets need to be found in a minimum set of function evaluations. Existing methods often assume a discrete search space with a finite set of data points for function evaluations and estimating the level sets. When applied to a continuous search space, these methods often need to first discretize the space which leads to poor results while needing high computational time. While some methods cater for the continuous setting, they still lack a proper guarantee for theoretical convergence. To address this problem, we propose a novel algorithm that does not need any discretization and can directly work in continuous search spaces. Our method suggests points by constructing an acquisition function that is defined as a measure of confidence of the function being higher or lower than the given threshold. A theoretical analysis for the convergence of the algorithm to an accurate solution is provided. On multiple synthetic and real-world datasets, our algorithm successfully outperforms state-of-the-art methods.

cs.LG↗

arXiv2024

Revisiting the Dataset Bias Problem from a Statistical Perspective

In this paper, we study the "dataset bias" problem from a statistical standpoint, and identify the main cause of the problem as the strong correlation between a class attribute u and a non-class attribute b in the input x, represented by p(u|b) differing significantly from p(u). Since p(u|b) appears as part of the sampling distributions in the standard maximum log-likelihood (MLL) objective, a model trained on a biased dataset via MLL inherently incorporates such correlation into its parameters, leading to poor generalization to unbiased test data. From this observation, we propose to mitigate dataset bias via either weighting the objective of each sample n by \frac{1}{p(u_{n}|b_{n})} or sampling that sample with a weight proportional to \frac{1}{p(u_{n}|b_{n})}. While both methods are statistically equivalent, the former proves more stable and effective in practice. Additionally, we establish a connection between our debiasing approach and causal reasoning, reinforcing our method's theoretical foundation. However, when the bias label is unavailable, computing p(u|b) exactly is difficult. To overcome this challenge, we propose to approximate \frac{1}{p(u|b)} using a biased classifier trained with "bias amplification" losses. Extensive experiments on various biased datasets demonstrate the superiority of our method over existing debiasing techniques in most settings, validating our theoretical analysis.

cs.LG↗

arXiv2023

Pragmatic Radiology Report Generation

When pneumonia is not found on a chest X-ray, should the report describe this negative observation or omit it? We argue that this question cannot be answered from the X-ray alone and requires a pragmatic perspective, which captures the communicative goal that radiology reports serve between radiologists and patients. However, the standard image-to-text formulation for radiology report generation fails to incorporate such pragmatic intents. Following this pragmatic perspective, we demonstrate that the indication, which describes why a patient comes for an X-ray, drives the mentions of negative observations and introduce indications as additional input to report generation. With respect to the output, we develop a framework to identify uninferable information from the image as a source of model hallucinations, and limit them by cleaning groundtruth reports. Finally, we use indications and cleaned groundtruth reports to develop pragmatic models, and show that they outperform existing methods not only in new pragmatics-inspired metrics (+4.3 Negative F1) but also in standard metrics (+6.3 Positive F1 and +11.0 BLEU-2).

cs.CL↗

arXiv2023

Real-Time Magnetic Tracking and Diagnosis of COVID-19 via Machine Learning

The COVID-19 pandemic underscored the importance of reliable, noninvasive diagnostic tools for robust public health interventions. In this work, we fused magnetic respiratory sensing technology (MRST) with machine learning (ML) to create a diagnostic platform for real-time tracking and diagnosis of COVID-19 and other respiratory diseases. The MRST precisely captures breathing patterns through three specific breath testing protocols: normal breath, holding breath, and deep breath. We collected breath data from both COVID-19 patients and healthy subjects in Vietnam using this platform, which then served to train and validate ML models. Our evaluation encompassed multiple ML algorithms, including support vector machines and deep learning models, assessing their ability to diagnose COVID-19. Our multi-model validation methodology ensures a thorough comparison and grants the adaptability to select the most optimal model, striking a balance between diagnostic precision with model interpretability. The findings highlight the exceptional potential of our diagnostic tool in pinpointing respiratory anomalies, achieving over 90% accuracy. This innovative sensor technology can be seamlessly integrated into healthcare settings for patient monitoring, marking a significant enhancement for the healthcare infrastructure.

cs.LG↗

arXiv2023

Self-Attention Amortized Distributional Projection Optimization for Sliced Wasserstein Point-Cloud Reconstruction

Max sliced Wasserstein (Max-SW) distance has been widely known as a solution for less discriminative projections of sliced Wasserstein (SW) distance. In applications that have various independent pairs of probability measures, amortized projection optimization is utilized to predict the ``max" projecting directions given two input measures instead of using projected gradient ascent multiple times. Despite being efficient, Max-SW and its amortized version cannot guarantee metricity property due to the sub-optimality of the projected gradient ascent and the amortization gap. Therefore, we propose to replace Max-SW with distributional sliced Wasserstein distance with von Mises-Fisher (vMF) projecting distribution (v-DSW). Since v-DSW is a metric with any non-degenerate vMF distribution, its amortized version can guarantee the metricity when performing amortization. Furthermore, current amortized models are not permutation invariant and symmetric. To address the issue, we design amortized models based on self-attention architecture. In particular, we adopt efficient self-attention architectures to make the computation linear in the number of supports. With the two improvements, we derive self-attention amortized distributional projection optimization and show its appealing performance in point-cloud reconstruction and its downstream applications.

stat.ML↗

arXiv2023

Multifractality in Surface Potential for Cancer Diagnosis

Recent advances in high-resolution biomedical imaging focusing on morphological, electrical, and biochemical properties of cells and tissues, scaling from cell clusters down to the molecular level, have improved cancer diagnosis. Multiscale imaging revealed high complexity that requires advanced data processing methods of multifractal analysis. We performed label-free multiscale imaging of surface potential variations in human ovarian and breast cancer cells using Kelvin probe force microscopy (KPFM). An improvement in the differentiation between normal and cancerous cells of for multifractal analysis using adaptive versus median threshold for image binarization was demonstrated. The results reveal the potential of using multifractality as a new biomarker for cancer diagnosis. Furthermore, the surface potential imaging can be used in combination with morphological imaging for cancer diagnosis.

physics.med-ph↗

arXiv2023

On Cross-Layer Alignment for Model Fusion of Heterogeneous Neural Networks

Layer-wise model fusion via optimal transport, named OTFusion, applies soft neuron association for unifying different pre-trained networks to save computational resources. While enjoying its success, OTFusion requires the input networks to have the same number of layers. To address this issue, we propose a novel model fusion framework, named CLAFusion, to fuse neural networks with a different number of layers, which we refer to as heterogeneous neural networks, via cross-layer alignment. The cross-layer alignment problem, which is an unbalanced assignment problem, can be solved efficiently using dynamic programming. Based on the cross-layer alignment, our framework balances the number of layers of neural networks before applying layer-wise model fusion. Our experiments indicate that CLAFusion, with an extra finetuning process, improves the accuracy of residual networks on the CIFAR10, CIFAR100, and Tiny-ImageNet datasets. Furthermore, we explore its practical usage for model compression and knowledge distillation when applying to the teacher-student setting.

cs.LG↗

arXiv2023

Towards Effective and Robust Neural Trojan Defenses via Input Filtering

Trojan attacks on deep neural networks are both dangerous and surreptitious. Over the past few years, Trojan attacks have advanced from using only a single input-agnostic trigger and targeting only one class to using multiple, input-specific triggers and targeting multiple classes. However, Trojan defenses have not caught up with this development. Most defense methods still make inadequate assumptions about Trojan triggers and target classes, thus, can be easily circumvented by modern Trojan attacks. To deal with this problem, we propose two novel "filtering" defenses called Variational Input Filtering (VIF) and Adversarial Input Filtering (AIF) which leverage lossy data compression and adversarial learning respectively to effectively purify potential Trojan triggers in the input at run time without making assumptions about the number of triggers/target classes or the input dependence property of triggers. In addition, we introduce a new defense mechanism called "Filtering-then-Contrasting" (FtC) which helps avoid the drop in classification accuracy on clean data caused by "filtering", and combine it with VIF/AIF to derive new defenses of this kind. Extensive experimental results and ablation studies show that our proposed defenses significantly outperform well-known baseline defenses in mitigating five advanced Trojan attacks including two recent state-of-the-art while being quite robust to small amounts of training data and large-norm triggers.

cs.CR↗

arXiv2022

Momentum Adversarial Distillation: Handling Large Distribution Shifts in Data-Free Knowledge Distillation

Data-free Knowledge Distillation (DFKD) has attracted attention recently thanks to its appealing capability of transferring knowledge from a teacher network to a student network without using training data. The main idea is to use a generator to synthesize data for training the student. As the generator gets updated, the distribution of synthetic data will change. Such distribution shift could be large if the generator and the student are trained adversarially, causing the student to forget the knowledge it acquired at previous steps. To alleviate this problem, we propose a simple yet effective method called Momentum Adversarial Distillation (MAD) which maintains an exponential moving average (EMA) copy of the generator and uses synthetic samples from both the generator and the EMA generator to train the student. Since the EMA generator can be considered as an ensemble of the generator's old versions and often undergoes a smaller change in updates compared to the generator, training on its synthetic samples can help the student recall the past knowledge and prevent the student from adapting too quickly to new updates of the generator. Our experiments on six benchmark datasets including big datasets like ImageNet and Places365 demonstrate the superior performance of MAD over competing methods for handling the large distribution shift problem. Our method also compares favorably to existing DFKD methods and even achieves state-of-the-art results in some cases.

cs.CV↗

arXiv2022

Efficient Classification with Counterfactual Reasoning and Active Learning

Data augmentation is one of the most successful techniques to improve the classification accuracy of machine learning models in computer vision. However, applying data augmentation to tabular data is a challenging problem since it is hard to generate synthetic samples with labels. In this paper, we propose an efficient classifier with a novel data augmentation technique for tabular data. Our method called CCRAL combines causal reasoning to learn counterfactual samples for the original training samples and active learning to select useful counterfactual samples based on a region of uncertainty. By doing this, our method can maximize our model's generalization on the unseen testing data. We validate our method analytically, and compare with the standard baselines. Our experimental results highlight that CCRAL achieves significantly better performance than those of the baselines across several real-world tabular datasets in terms of accuracy and AUC. Data and source code are available at: https://github.com/nphdang/CCRAL.

cs.LG↗