Jun Li

Pengbo Liu, Yang Deng, Ce Wang et al.

In the paper, we present an approach for learning a single model that universally segments 33 anatomical structures, including vertebrae, pelvic bones, and abdominal organs. Our model building has to address the following challenges. Firstly, while it is ideal to learn such a model from a large-scale, fully-annotated dataset, it is practically hard to curate such a dataset. Thus, we resort to learn from a union of multiple datasets, with each dataset containing the images that are partially labeled. Secondly, along the line of partial labelling, we contribute an open-source, large-scale vertebra segmentation dataset for the benefit of spine analysis community, CTSpine1K, boasting over 1,000 3D volumes and over 11K annotated vertebrae. Thirdly, in a 3D medical image segmentation task, due to the limitation of GPU memory, we always train a model using cropped patches as inputs instead a whole 3D volume, which limits the amount of contextual information to be learned. To this, we propose a cross-patch transformer module to fuse more information in adjacent patches, which enlarges the aggregated receptive field for improved segmentation performance. This is especially important for segmenting, say, the elongated spine. Based on 7 partially labeled datasets that collectively contain about 2,800 3D volumes, we successfully learn such a universal model. Finally, we evaluate the universal model on multiple open-source datasets, proving that our model has a good generalization performance and can potentially serve as a solid foundation for downstream tasks.

Quan Quan, Qingsong Yao, Jun Li et al.

The success of deep learning methods relies on the availability of well-labeled large-scale datasets. However, for medical images, annotating such abundant training data often requires experienced radiologists and consumes their limited time. Few-shot learning is developed to alleviate this burden, which achieves competitive performances with only several labeled data. However, a crucial yet previously overlooked problem in few-shot learning is about the selection of template images for annotation before learning, which affects the final performance. We herein propose a novel Sample Choosing Policy (SCP) to select "the most worthy" images for annotation, in the context of few-shot medical landmark detection. SCP consists of three parts: 1) Self-supervised training for building a pre-trained deep model to extract features from radiological images, 2) Key Point Proposal for localizing informative patches, and 3) Representative Score Estimation for searching the most representative samples or templates. The advantage of SCP is demonstrated by various experiments on three widely-used public datasets. For one-shot medical landmark detection, its use reduces the mean radial errors on Cephalometric and HandXray datasets by 14.2% (from 3.595mm to 3.083mm) and 35.5% (4.114mm to 2.653mm), respectively.