Learned Image Compression for HE-stained Histopathological Images via Stain Deconvolution

Processing histopathological Whole Slide Images (WSI) leads to massive storage requirements for clinics worldwide. Even after lossy image compression during image acquisition, additional lossy compression is frequently possible without substantially affecting the performance of deep learning-based (DL) downstream tasks. In this paper, we show that the commonly used JPEG algorithm is not best suited for further compression and we propose Stain Quantized Latent Compression (SQLC ), a novel DL based histopathology data compression approach. SQLC compresses staining and RGB channels before passing it through a compression autoencoder (CAE ) in order to obtain quantized latent representations for maximizing the compression. We show that our approach yields superior performance in a classification downstream task, compared to traditional approaches like JPEG, while image quality metrics like the Multi-Scale Structural Similarity Index (MS-SSIM) is largely preserved. Our method is online available.

Whole Slide Multiple Instance Learning for Predicting Axillary Lymph Node Metastasis

Breast cancer is a major concern for women's health globally, with axillary lymph node (ALN) metastasis identification being critical for prognosis evaluation and treatment guidance. This paper presents a deep learning (DL) classification pipeline for quantifying clinical information from digital core-needle biopsy (CNB) images, with one step less than existing methods. A publicly available dataset of 1058 patients was used to evaluate the performance of different baseline state-of-the-art (SOTA) DL models in classifying ALN metastatic status based on CNB images. An extensive ablation study of various data augmentation techniques was also conducted. Finally, the manual tumor segmentation and annotation step performed by the pathologists was assessed.

DISBELIEVE: Distance Between Client Models is Very Essential for Effective Local Model Poisoning Attacks

Federated learning is a promising direction to tackle the privacy issues related to sharing patients' sensitive data. Often, federated systems in the medical image analysis domain assume that the participating local clients are \textit{honest}. Several studies report mechanisms through which a set of malicious clients can be introduced that can poison the federated setup, hampering the performance of the global model. To overcome this, robust aggregation methods have been proposed that defend against those attacks. We observe that most of the state-of-the-art robust aggregation methods are heavily dependent on the distance between the parameters or gradients of malicious clients and benign clients, which makes them prone to local model poisoning attacks when the parameters or gradients of malicious and benign clients are close. Leveraging this, we introduce DISBELIEVE, a local model poisoning attack that creates malicious parameters or gradients such that their distance to benign clients' parameters or gradients is low respectively but at the same time their adverse effect on the global model's performance is high. Experiments on three publicly available medical image datasets demonstrate the efficacy of the proposed DISBELIEVE attack as it significantly lowers the performance of the state-of-the-art \textit{robust aggregation} methods for medical image analysis. Furthermore, compared to state-of-the-art local model poisoning attacks, DISBELIEVE attack is also effective on natural images where we observe a severe drop in classification performance of the global model for multi-class classification on benchmark dataset CIFAR-10.

Multi-Organ Cancer Classification and Survival Analysis

Accurate and robust cell nuclei classification is the cornerstone for a wider range of tasks in digital and Computational Pathology. However, most machine learning systems require extensive labeling from expert pathologists for each individual problem at hand, with no or limited abilities for knowledge transfer between datasets and organ sites. In this paper we implement and evaluate a variety of deep neural network models and model ensembles for nuclei classification in renal cell cancer (RCC) and prostate cancer (PCa). We propose a convolutional neural network system based on residual learning which significantly improves over the state-of-the-art in cell nuclei classification. Finally, we show that the combination of tissue types during training increases not only classification accuracy but also overall survival analysis.