Boundary-aware Context Neural Network for Medical Image Segmentation

Medical image segmentation can provide a reliable basis for further clinical analysis and disease diagnosis. The performance of medical image segmentation has been significantly advanced with the convolutional neural networks (CNNs). However, most existing CNNs-based methods often produce unsatisfactory segmentation mask without accurate object boundaries. This is caused by the limited context information and inadequate discriminative feature maps after consecutive pooling and convolution operations. In that the medical image is characterized by the high intra-class variation, inter-class indistinction and noise, extracting powerful context and aggregating discriminative features for fine-grained segmentation are still challenging today. In this paper, we formulate a boundary-aware context neural network (BA-Net) for 2D medical image segmentation to capture richer context and preserve fine spatial information. BA-Net adopts encoder-decoder architecture. In each stage of encoder network, pyramid edge extraction module is proposed for obtaining edge information with multiple granularities firstly. Then we design a mini multi-task learning module for jointly learning to segment object masks and detect lesion boundaries. In particular, a new interactive attention is proposed to bridge two tasks for achieving information complementarity between different tasks, which effectively leverages the boundary information for offering a strong cue to better segmentation prediction. At last, a cross feature fusion module aims to selectively aggregate multi-level features from the whole encoder network. By cascaded three modules, richer context and fine-grain features of each stage are encoded. Extensive experiments on five datasets show that the proposed BA-Net outperforms state-of-the-art approaches.

[1]  Fernando Vilariño,et al.  Towards automatic polyp detection with a polyp appearance model , 2012, Pattern Recognit..

[2]  Michael S. Bernstein,et al.  ImageNet Large Scale Visual Recognition Challenge , 2014, International Journal of Computer Vision.

[3]  Bryan M. Williams,et al.  Learning Active Contour Models for Medical Image Segmentation , 2019, 2019 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR).

[4]  Junji Maeda,et al.  Comparison of Segmentation Methods for Melanoma Diagnosis in Dermoscopy Images , 2009, IEEE Journal of Selected Topics in Signal Processing.

[5]  Jian Sun,et al.  Deep Residual Learning for Image Recognition , 2015, 2016 IEEE Conference on Computer Vision and Pattern Recognition (CVPR).

[6]  Tao Xu,et al.  Adversarial learning with multi-scale loss for skin lesion segmentation , 2018, 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018).

[7]  Chunhua Shen,et al.  A Mutual Bootstrapping Model for Automated Skin Lesion Segmentation and Classification , 2020, IEEE Transactions on Medical Imaging.

[8]  Ron Kikinis,et al.  Improved watershed transform for medical image segmentation using prior information , 2004, IEEE Transactions on Medical Imaging.

[9]  Guillermo Sapiro,et al.  Segmenting skin lesions with partial-differential-equations-based image processing algorithms , 2000 .

[10]  Clement J. McDonald,et al.  Lung Segmentation in Chest Radiographs Using Anatomical Atlases With Nonrigid Registration , 2014, IEEE Transactions on Medical Imaging.

[11]  George Papandreou,et al.  Rethinking Atrous Convolution for Semantic Image Segmentation , 2017, ArXiv.

[12]  Hao Chen,et al.  Automated Melanoma Recognition in Dermoscopy Images via Very Deep Residual Networks , 2017, IEEE Transactions on Medical Imaging.

[13]  Jian Sun,et al.  ExFuse: Enhancing Feature Fusion for Semantic Segmentation , 2018, ECCV.

[14]  Michael Brady,et al.  Random walk-based automated segmentation for the prognosis of malignant pleural mesothelioma , 2011, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[15]  Thomas de Lange,et al.  Kvasir-SEG: A Segmented Polyp Dataset , 2019, MMM.

[16]  Wei Zeng,et al.  Chest X-Ray Analysis of Tuberculosis by Deep Learning with Segmentation and Augmentation , 2018, 2018 IEEE 38th International Conference on Electronics and Nanotechnology (ELNANO).

[17]  Serge J. Belongie,et al.  Normalized cuts in 3-D for spinal MRI segmentation , 2004, IEEE Transactions on Medical Imaging.

[18]  Venkateswararao Cherukuri,et al.  Deep Retinal Image Segmentation With Regularization Under Geometric Priors , 2019, IEEE Transactions on Image Processing.

[19]  Hang Li,et al.  Dense Deconvolutional Network for Skin Lesion Segmentation , 2019, IEEE Journal of Biomedical and Health Informatics.

[20]  W. Eric L. Grimson,et al.  Mutual information in coupled multi-shape model for medical image segmentation , 2004, Medical Image Anal..

[21]  Xinjian Chen,et al.  Medical Image Segmentation by Combining Graph Cuts and Oriented Active Appearance Models , 2012, IEEE Transactions on Image Processing.

[22]  Demetri Terzopoulos,et al.  Deformable models in medical image analysis: a survey , 1996, Medical Image Anal..

[23]  Thomas Brox,et al.  U-Net: Convolutional Networks for Biomedical Image Segmentation , 2015, MICCAI.

[24]  Pascal Haigron,et al.  Evaluation of multi-atlas-based segmentation of CT scans in prostate cancer radiotherapy , 2011, 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro.

[25]  Fengying Xie,et al.  Automatic Skin Lesion Segmentation Based on Texture Analysis and Supervised Learning , 2012, ACCV.

[26]  Nenghai Yu,et al.  A multi-task framework with feature passing module for skin lesion classification and segmentation , 2018, 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018).

[27]  Trevor Darrell,et al.  Fully Convolutional Networks for Semantic Segmentation , 2017, IEEE Transactions on Pattern Analysis and Machine Intelligence.

[28]  Pierre-Louis Bazin,et al.  Homeomorphic brain image segmentation with topological and statistical atlases , 2008, Medical Image Anal..

[29]  Sebastian Thrun,et al.  Dermatologist-level classification of skin cancer with deep neural networks , 2017, Nature.

[30]  Francisco Fumero,et al.  RIM-ONE: An open retinal image database for optic nerve evaluation , 2011, 2011 24th International Symposium on Computer-Based Medical Systems (CBMS).

[31]  Ben Glocker,et al.  Attention Gated Networks: Learning to Leverage Salient Regions in Medical Images , 2018, Medical Image Anal..

[32]  Jun Xie,et al.  Segmentation of kidney from ultrasound images based on texture and shape priors , 2005, IEEE Transactions on Medical Imaging.

[33]  Xiaogang Wang,et al.  Pyramid Scene Parsing Network , 2016, 2017 IEEE Conference on Computer Vision and Pattern Recognition (CVPR).

[34]  Neeraj Sharma,et al.  Automated medical image segmentation techniques , 2010, Journal of medical physics.

[35]  Frédo Durand,et al.  Data augmentation using learned transforms for one-shot medical image segmentation , 2019, ArXiv.

[36]  Petia Radeva,et al.  SLSDeep: Skin Lesion Segmentation Based on Dilated Residual and Pyramid Pooling Networks , 2018, MICCAI.

[37]  Eric A. Hoffman,et al.  Automatic lung segmentation for accurate quantitation of volumetric X-ray CT images , 2001, IEEE Transactions on Medical Imaging.

[38]  Begoña García Zapirain,et al.  Automatized colon polyp segmentation via contour region analysis , 2018, Comput. Biol. Medicine.

[39]  Shenghua Gao,et al.  CE-Net: Context Encoder Network for 2D Medical Image Segmentation , 2019, IEEE Transactions on Medical Imaging.

[40]  Mohammad Sohel Rahman,et al.  MultiResUNet : Rethinking the U-Net Architecture for Multimodal Biomedical Image Segmentation , 2019, Neural Networks.

[41]  Noel C. F. Codella,et al.  Skin lesion analysis toward melanoma detection: A challenge at the 2017 International symposium on biomedical imaging (ISBI), hosted by the international skin imaging collaboration (ISIC) , 2016, 2018 IEEE 15th International Symposium on Biomedical Imaging (ISBI 2018).

[42]  J Jiang,et al.  Medical image analysis with artificial neural networks , 2010, Comput. Medical Imaging Graph..

[43]  Christopher Joseph Pal,et al.  Learning normalized inputs for iterative estimation in medical image segmentation , 2017, Medical Image Anal..

[44]  Sébastien Ourselin,et al.  DeepIGeoS: A Deep Interactive Geodesic Framework for Medical Image Segmentation , 2017, IEEE Transactions on Pattern Analysis and Machine Intelligence.

[45]  W. Jaschke,et al.  Automated melanoma recognition , 2001, IEEE Transactions on Medical Imaging.

[46]  Ling Shao,et al.  Collaborative Learning of Semi-Supervised Segmentation and Classification for Medical Images , 2019, 2019 IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR).

[47]  Dagan Feng,et al.  Dermoscopic Image Segmentation via Multistage Fully Convolutional Networks , 2017, IEEE Transactions on Biomedical Engineering.

[48]  Hao Chen,et al.  Synergistic Image and Feature Adaptation: Towards Cross-Modality Domain Adaptation for Medical Image Segmentation , 2019, AAAI.

[49]  Seyed-Ahmad Ahmadi,et al.  V-Net: Fully Convolutional Neural Networks for Volumetric Medical Image Segmentation , 2016, 2016 Fourth International Conference on 3D Vision (3DV).

[50]  Guillermo Sapiro,et al.  Segmenting skin lesions with partial-differential-equations-based image processing algorithms , 2000, IEEE Transactions on Medical Imaging.

[51]  Yanhui Guo,et al.  A hybrid dermoscopy images segmentation approach based on neutrosophic clustering and histogram estimation , 2018, Appl. Soft Comput..

[52]  Mert R. Sabuncu,et al.  Anatomical Priors in Convolutional Networks for Unsupervised Biomedical Segmentation , 2018, 2018 IEEE/CVF Conference on Computer Vision and Pattern Recognition.

[53]  Marcel Worring,et al.  Watersnakes: Energy-Driven Watershed Segmentation , 2003, IEEE Trans. Pattern Anal. Mach. Intell..

[54]  Pierre-Louis Bazin,et al.  Statistical and Topological Atlas Based Brain Image Segmentation , 2007, MICCAI.