A generic ensemble based deep convolutional neural network for semi-supervised medical image segmentation

Deep learning based image segmentation has achieved the state-of-the-art performance in many medical applications such as lesion quantification, organ detection, etc. However, most of the methods rely on supervised learning, which require a large set of high-quality labeled data. Data annotation is generally an extremely time-consuming process. To address this problem, we propose a generic semi-supervised learning framework for image segmentation based on a deep convolutional neural network (DCNN). An encoder-decoder based DCNN is initially trained using a few annotated training samples. This initially trained model is then copied into sub-models and improved iteratively using random subsets of unlabeled data with pseudo labels generated from models trained in the previous iteration. The number of sub-models is gradually decreased to one in the final iteration. We evaluate the proposed method on a public grand-challenge dataset for skin lesion segmentation. Our method is able to significantly improve beyond fully supervised model learning by incorporating unlabeled data.Comment: Accepted for publication at IEEE International Symposium on Biomedical Imaging (ISBI) 202