Guide3D: A Bi-planar X-ray Dataset for 3D Shape Reconstruction

Endovascular surgical tool reconstruction represents an important factor in advancing endovascular tool navigation, which is an important step in endovascular surgery. However, the lack of publicly available datasets significantly restricts the development and validation of novel machine learning approaches. Moreover, due to the need for specialized equipment such as biplanar scanners, most of the previous research employs monoplanar fluoroscopic technologies, hence only capturing the data from a single view and significantly limiting the reconstruction accuracy. To bridge this gap, we introduce Guide3D, a bi-planar X-ray dataset for 3D reconstruction. The dataset represents a collection of high resolution bi-planar, manually annotated fluoroscopic videos, captured in real-world settings. Validating our dataset within a simulated environment reflective of clinical settings confirms its applicability for real-world applications. Furthermore, we propose a new benchmark for guidewrite shape prediction, serving as a strong baseline for future work. Guide3D not only addresses an essential need by offering a platform for advancing segmentation and 3D reconstruction techniques but also aids the development of more accurate and efficient endovascular surgery interventions. Our project is available at https://airvlab.github.io/guide3d/.

CathAction: A Benchmark for Endovascular Intervention Understanding

Real-time visual feedback from catheterization analysis is crucial for enhancing surgical safety and efficiency during endovascular interventions. However, existing datasets are often limited to specific tasks, small scale, and lack the comprehensive annotations necessary for broader endovascular intervention understanding. To tackle these limitations, we introduce CathAction, a large-scale dataset for catheterization understanding. Our CathAction dataset encompasses approximately 500,000 annotated frames for catheterization action understanding and collision detection, and 25,000 ground truth masks for catheter and guidewire segmentation. For each task, we benchmark recent related works in the field. We further discuss the challenges of endovascular intentions compared to traditional computer vision tasks and point out open research questions. We hope that CathAction will facilitate the development of endovascular intervention understanding methods that can be applied to real-world applications. The dataset is available at https://airvlab.github.io/cathdata/.

TTA-OOD: Test-time Augmentation for Improving Out-of-Distribution Detection in Gastrointestinal Vision

Deep learning has significantly advanced the field of gastrointestinal vision, enhancing disease diagnosis capabilities. One major challenge in automating diagnosis within gastrointestinal settings is the detection of abnormal cases in endoscopic images. Due to the sparsity of data, this process of distinguishing normal from abnormal cases has faced significant challenges, particularly with rare and unseen conditions. To address this issue, we frame abnormality detection as an out-of-distribution (OOD) detection problem. In this setup, a model trained on In-Distribution (ID) data, which represents a healthy GI tract, can accurately identify healthy cases, while abnormalities are detected as OOD, regardless of their class. We introduce a test-time augmentation segment into the OOD detection pipeline, which enhances the distinction between ID and OOD examples, thereby improving the effectiveness of existing OOD methods with the same model. This augmentation shifts the pixel space, which translates into a more distinct semantic representation for OOD examples compared to ID examples. We evaluated our method against existing state-of-the-art OOD scores, showing improvements with test-time augmentation over the baseline approach.

CAR-MFL: Cross-Modal Augmentation by Retrieval for Multimodal Federated Learning with Missing Modalities

Multimodal AI has demonstrated superior performance over unimodal approaches by leveraging diverse data sources for more comprehensive analysis. However, applying this effectiveness in healthcare is challenging due to the limited availability of public datasets. Federated learning presents an exciting solution, allowing the use of extensive databases from hospitals and health centers without centralizing sensitive data, thus maintaining privacy and security. Yet, research in multimodal federated learning, particularly in scenarios with missing modalities a common issue in healthcare datasets remains scarce, highlighting a critical area for future exploration. Toward this, we propose a novel method for multimodal federated learning with missing modalities. Our contribution lies in a novel cross-modal data augmentation by retrieval, leveraging the small publicly available dataset to fill the missing modalities in the clients. Our method learns the parameters in a federated manner, ensuring privacy protection and improving performance in multiple challenging multimodal benchmarks in the medical domain, surpassing several competitive baselines. Code Available: https://github.com/bhattarailab/CAR-MFL

TE-SSL: Time and Event-aware Self Supervised Learning for Alzheimer's Disease Progression Analysis

Alzheimer's Dementia (AD) represents one of the most pressing challenges in the field of neurodegenerative disorders, with its progression analysis being crucial for understanding disease dynamics and developing targeted interventions. Recent advancements in deep learning and various representation learning strategies, including self-supervised learning (SSL), have shown significant promise in enhancing medical image analysis, providing innovative ways to extract meaningful patterns from complex data. Notably, the computer vision literature has demonstrated that incorporating supervisory signals into SSL can further augment model performance by guiding the learning process with additional relevant information. However, the application of such supervisory signals in the context of disease progression analysis remains largely unexplored. This gap is particularly pronounced given the inherent challenges of incorporating both event and time-to-event information into the learning paradigm. Addressing this, we propose a novel framework, Time and Even-aware SSL (TE-SSL), which integrates time-to-event and event data as supervisory signals to refine the learning process. Our comparative analysis with existing SSL-based methods in the downstream task of survival analysis shows superior performance across standard metrics.

Active Label Refinement for Robust Training of Imbalanced Medical Image Classification Tasks in the Presence of High Label Noise

The robustness of supervised deep learning-based medical image classification is significantly undermined by label noise. Although several methods have been proposed to enhance classification performance in the presence of noisy labels, they face some challenges: 1) a struggle with class-imbalanced datasets, leading to the frequent overlooking of minority classes as noisy samples; 2) a singular focus on maximizing performance using noisy datasets, without incorporating experts-in-the-loop for actively cleaning the noisy labels. To mitigate these challenges, we propose a two-phase approach that combines Learning with Noisy Labels (LNL) and active learning. This approach not only improves the robustness of medical image classification in the presence of noisy labels, but also iteratively improves the quality of the dataset by relabeling the important incorrect labels, under a limited annotation budget. Furthermore, we introduce a novel Variance of Gradients approach in LNL phase, which complements the loss-based sample selection by also sampling under-represented samples. Using two imbalanced noisy medical classification datasets, we demonstrate that that our proposed technique is superior to its predecessors at handling class imbalance by not misidentifying clean samples from minority classes as mostly noisy samples.

Investigating the Robustness of Vision Transformers against Label Noise in Medical Image Classification

Label noise in medical image classification datasets significantly hampers the training of supervised deep learning methods, undermining their generalizability. The test performance of a model tends to decrease as the label noise rate increases. Over recent years, several methods have been proposed to mitigate the impact of label noise in medical image classification and enhance the robustness of the model. Predominantly, these works have employed CNN-based architectures as the backbone of their classifiers for feature extraction. However, in recent years, Vision Transformer (ViT)-based backbones have replaced CNNs, demonstrating improved performance and a greater ability to learn more generalizable features, especially when the dataset is large. Nevertheless, no prior work has rigorously investigated how transformer-based backbones handle the impact of label noise in medical image classification. In this paper, we investigate the architectural robustness of ViT against label noise and compare it to that of CNNs. We use two medical image classification datasets -- COVID-DU-Ex, and NCT-CRC-HE-100K -- both corrupted by injecting label noise at various rates. Additionally, we show that pretraining is crucial for ensuring ViT's improved robustness against label noise in supervised training.

Investigation of Federated Learning Algorithms for Retinal Optical Coherence Tomography Image Classification with Statistical Heterogeneity

Purpose: We apply federated learning to train an OCT image classifier simulating a realistic scenario with multiple clients and statistical heterogeneous data distribution where data in the clients lack samples of some categories entirely. Methods: We investigate the effectiveness of FedAvg and FedProx to train an OCT image classification model in a decentralized fashion, addressing privacy concerns associated with centralizing data. We partitioned a publicly available OCT dataset across multiple clients under IID and Non-IID settings and conducted local training on the subsets for each client. We evaluated two federated learning methods, FedAvg and FedProx for these settings. Results: Our experiments on the dataset suggest that under IID settings, both methods perform on par with training on a central data pool. However, the performance of both algorithms declines as we increase the statistical heterogeneity across the client data, while FedProx consistently performs better than FedAvg in the increased heterogeneity settings. Conclusion: Despite the effectiveness of federated learning in the utilization of private data across multiple medical institutions, the large number of clients and heterogeneous distribution of labels deteriorate the performance of both algorithms. Notably, FedProx appears to be more robust to the increased heterogeneity.

How does self-supervised pretraining improve robustness against noisy labels across various medical image classification datasets?

Noisy labels can significantly impact medical image classification, particularly in deep learning, by corrupting learned features. Self-supervised pretraining, which doesn't rely on labeled data, can enhance robustness against noisy labels. However, this robustness varies based on factors like the number of classes, dataset complexity, and training size. In medical images, subtle inter-class differences and modality-specific characteristics add complexity. Previous research hasn't comprehensively explored the interplay between self-supervised learning and robustness against noisy labels in medical image classification, considering all these factors. In this study, we address three key questions: i) How does label noise impact various medical image classification datasets? ii) Which types of medical image datasets are more challenging to learn and more affected by label noise? iii) How do different self-supervised pretraining methods enhance robustness across various medical image datasets? Our results show that DermNet, among five datasets (Fetal plane, DermNet, COVID-DU-Ex, MURA, NCT-CRC-HE-100K), is the most challenging but exhibits greater robustness against noisy labels. Additionally, contrastive learning stands out among the eight self-supervised methods as the most effective approach to enhance robustness against noisy labels.

Medical Vision Language Pretraining: A survey

Medical Vision Language Pretraining (VLP) has recently emerged as a promising solution to the scarcity of labeled data in the medical domain. By leveraging paired/unpaired vision and text datasets through self-supervised learning, models can be trained to acquire vast knowledge and learn robust feature representations. Such pretrained models have the potential to enhance multiple downstream medical tasks simultaneously, reducing the dependency on labeled data. However, despite recent progress and its potential, there is no such comprehensive survey paper that has explored the various aspects and advancements in medical VLP. In this paper, we specifically review existing works through the lens of different pretraining objectives, architectures, downstream evaluation tasks, and datasets utilized for pretraining and downstream tasks. Subsequently, we delve into current challenges in medical VLP, discussing existing and potential solutions, and conclude by highlighting future directions. To the best of our knowledge, this is the first survey focused on medical VLP.