Multimodal Self-Supervised Learning for Medical Image Analysis (1912.05396v2)

Abstract: Self-supervised learning approaches leverage unlabeled samples to acquire generic knowledge about different concepts, hence allowing for annotation-efficient downstream task learning. In this paper, we propose a novel self-supervised method that leverages multiple imaging modalities. We introduce the multimodal puzzle task, which facilitates rich representation learning from multiple image modalities. The learned representations allow for subsequent fine-tuning on different downstream tasks. To achieve that, we learn a modality-agnostic feature embedding by confusing image modalities at the data-level. Together with the Sinkhorn operator, with which we formulate the puzzle solving optimization as permutation matrix inference instead of classification, they allow for efficient solving of multimodal puzzles with varying levels of complexity. In addition, we also propose to utilize cross-modal generation techniques for multimodal data augmentation used for training self-supervised tasks. In other words, we exploit synthetic images for self-supervised pretraining, instead of downstream tasks directly, in order to circumvent quality issues associated with synthetic images, while improving data-efficiency and representations quality. Our experimental results, which assess the gains in downstream performance and data-efficiency, show that solving our multimodal puzzles yields better semantic representations, compared to treating each modality independently. Our results also highlight the benefits of exploiting synthetic images for self-supervised pretraining. We showcase our approach on four downstream tasks: Brain tumor segmentation and survival days prediction using four MRI modalities, Prostate segmentation using two MRI modalities, and Liver segmentation using unregistered CT and MRI modalities. We outperform many previous solutions, and achieve results competitive to state-of-the-art.