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Register a new userMULAN: Multitask Universal Lesion Analysis Network for Joint Lesion Detection, Tagging, and Segmentation
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Added by
Ke Yan
Publication date
2019
fields
Informatics Engineering
and research's language is
English
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When reading medical images such as a computed tomography (CT) scan, radiologists generally search across the image to find lesions, characterize and measure them, and then describe them in the radiological report. To automate this process, we propose a multitask universal lesion analysis network (MULAN) for joint detection, tagging, and segmentation of lesions in a variety of body parts, which greatly extends existing work of single-task lesion analysis on specific body parts. MULAN is based on an improved Mask R-CNN framework with three head branches and a 3D feature fusion strategy. It achieves the state-of-the-art accuracy in the detection and tagging tasks on the DeepLesion dataset, which contains 32K lesions in the whole body. We also analyze the relationship between the three tasks and show that tag predictions can improve detection accuracy via a score refinement layer.
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Early detection and segmentation of skin lesions is crucial for timely diagnosis and treatment, necessary to improve the survival rate of patients. However, manual delineation is time consuming and subject to intra- and inter-observer variations among dermatologists. This underlines the need for an accurate and automatic approach to skin lesion segmentation. To tackle this issue, we propose a multi-task convolutional neural network (CNN) based, joint detection and segmentation framework, designed to initially localize the lesion and subsequently, segment it. A `Faster region-based convolutional neural network (Faster-RCNN) which comprises a region proposal network (RPN), is used to generate bounding boxes/region proposals, for lesion localization in each image. The proposed regions are subsequently refined using a softmax classifier and a bounding-box regressor. The refined bounding boxes are finally cropped and segmented using `SkinNet, a modified version of U-Net. We trained and evaluated the performance of our network, using the ISBI 2017 challenge and the PH2 datasets, and compared it with the state-of-the-art, using the official test data released as part of the challenge for the former. Our approach outperformed others in terms of Dice coefficients ($>0.93$), Jaccard index ($>0.88$), accuracy ($>0.96$) and sensitivity ($>0.95$), across five-fold cross validation experiments.
Accurate segmentation of breast lesions is a crucial step in evaluating the characteristics of tumors. However, this is a challenging task, since breast lesions have sophisticated shape, topological structure, and variation in the intensity distribution. In this paper, we evaluated the performance of three unsupervised algorithms for the task of breast Magnetic Resonance (MRI) lesion segmentation, namely, Gaussian Mixture Model clustering, K-means clustering and a marker-controlled Watershed transformation based method. All methods were applied on breast MRI slices following selection of regions of interest (ROIs) by an expert radiologist and evaluated on 106 subjects images, which include 59 malignant and 47 benign lesions. Segmentation accuracy was evaluated by comparing our results with ground truth masks, using the Dice similarity coefficient (DSC), Jaccard index (JI), Hausdorff distance and precision-recall metrics. The results indicate that the marker-controlled Watershed transformation outperformed all other algorithms investigated.
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Lesion detection is an important problem within medical imaging analysis. Most previous work focuses on detecting and segmenting a specialized category of lesions (e.g., lung nodules). However, in clinical practice, radiologists are responsible for finding all possible types of anomalies. The task of universal lesion detection (ULD) was proposed to address this challenge by detecting a large variety of lesions from the whole body. There are multiple heterogeneously labeled datasets with varying label completeness: DeepLesion, the largest dataset of 32,735 annotated lesions of various types, but with even more missing annotation instances; and several fully-labeled single-type lesion datasets, such as LUNA for lung nodules and LiTS for liver tumors. In this work, we propose a novel framework to leverage all these datasets together to improve the performance of ULD. First, we learn a multi-head multi-task lesion detector using all datasets and generate lesion proposals on DeepLesion. Second, missing annotations in DeepLesion are retrieved by a new method of embedding matching that exploits clinical prior knowledge. Last, we discover suspicious but unannotated lesions using knowledge transfer from single-type lesion detectors. In this way, reliable positive and negative regions are obtained from partially-labeled and unlabeled images, which are effectively utilized to train ULD. To assess the clinically realistic protocol of 3D volumetric ULD, we fully annotated 1071 CT sub-volumes in DeepLesion. Our method outperforms the current state-of-the-art approach by 29% in the metric of average sensitivity.
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