Hybrid Dual Mean-Teacher Network With Double-Uncertainty Guidance for Semi-Supervised Segmentation of MRI Scans

Semi-supervised learning has made significant progress in medical image segmentation. However, existing methods primarily utilize information acquired from a single dimensionality (2D/3D), resulting in sub-optimal performance on challenging data, such as magnetic resonance imaging (MRI) scans with multiple objects and highly anisotropic resolution. To address this issue, we present a Hybrid Dual Mean-Teacher (HD-Teacher) model with hybrid, semi-supervised, and multi-task learning to achieve highly effective semi-supervised segmentation. HD-Teacher employs a 2D and a 3D mean-teacher network to produce segmentation labels and signed distance fields from the hybrid information captured in both dimensionalities. This hybrid learning mechanism allows HD-Teacher to combine the `best of both worlds', utilizing features extracted from either 2D, 3D, or both dimensions to produce outputs as it sees fit. Outputs from 2D and 3D teacher models are also dynamically combined, based on their individual uncertainty scores, into a single hybrid prediction, where the hybrid uncertainty is estimated. We then propose a hybrid regularization module to encourage both student models to produce results close to the uncertainty-weighted hybrid prediction. The hybrid uncertainty suppresses unreliable knowledge in the hybrid prediction, leaving only useful information to improve network performance further. Extensive experiments of binary and multi-class segmentation conducted on three MRI datasets demonstrate the effectiveness of the proposed framework. Code is available at https://github.com/ThisGame42/Hybrid-Teacher.

[1]  F. Gao,et al.  Segmentation only uses sparse annotations: Unified weakly and semi-supervised learning in medical images , 2022, Medical Image Anal..

[2]  Dimitris N. Metaxas,et al.  Semi-supervised medical image segmentation via uncertainty rectified pyramid consistency , 2022, Medical Image Anal..

[3]  Jiliu Zhou,et al.  Semi-supervised medical image segmentation via a tripled-uncertainty guided mean teacher model with contrastive learning , 2022, Medical Image Anal..

[4]  E. Meijering,et al.  Hybrid Attentive Unet for Segmentation of Lower Leg Muscles and Bones From MRI Scans For Musculoskeletal Research , 2022, 2022 IEEE 19th International Symposium on Biomedical Imaging (ISBI).

[5]  Jianxin Wang,et al.  A Fully Automated Multimodal MRI-Based Multi-Task Learning for Glioma Segmentation and IDH Genotyping , 2022, IEEE Transactions on Medical Imaging.

[6]  Jiliu Zhou,et al.  Semi-supervised NPC segmentation with uncertainty and attention guided consistency , 2021, Knowl. Based Syst..

[7]  A. Bharath,et al.  LA-Net: A Multi-Task Deep Network for the Segmentation of the Left Atrium , 2021, IEEE Transactions on Medical Imaging.

[8]  Dimitris N. Metaxas,et al.  Semi-Supervised Segmentation of Radiation-Induced Pulmonary Fibrosis From Lung CT Scans With Multi-Scale Guided Dense Attention , 2021, IEEE Transactions on Medical Imaging.

[9]  Y. Duan,et al.  A 2D–3D hybrid convolutional neural network for lung lobe auto-segmentation on standard slice thickness computed tomography of patients receiving radiotherapy , 2021, Biomedical engineering online.

[10]  Z. Ge,et al.  Mutual consistency learning for semi-supervised medical image segmentation , 2021, Medical Image Anal..

[11]  E. Meijering,et al.  Deep learning methods for automatic segmentation of lower leg muscles and bones from MRI scans of children with and without cerebral palsy , 2021, NMR in biomedicine.

[12]  Y. Duan,et al.  Automatic segmentation of lung tumors on CT images based on a 2D & 3D hybrid convolutional neural network. , 2021, The British journal of radiology.

[13]  Sebastien Ourselin,et al.  MIDeepSeg: Minimally Interactive Segmentation of Unseen Objects from Medical Images Using Deep Learning , 2021, Medical Image Anal..

[14]  Sotirios A. Tsaftaris,et al.  Learning to Segment From Scribbles Using Multi-Scale Adversarial Attention Gates , 2021, IEEE Transactions on Medical Imaging.

[15]  Jianfei Cai,et al.  Semi-supervised Left Atrium Segmentation with Mutual Consistency Training , 2021, MICCAI.

[16]  Jens Petersen,et al.  nnU-Net: a self-configuring method for deep learning-based biomedical image segmentation , 2020, Nature Methods.

[17]  Pew-Thian Yap,et al.  Multi-task learning for segmentation and classification of tumors in 3D automated breast ultrasound images , 2020, Medical Image Anal..

[18]  Yuanyuan Wang,et al.  A global benchmark of algorithms for segmenting the left atrium from late gadolinium-enhanced cardiac magnetic resonance imaging , 2020, Medical Image Anal..

[19]  Zhongchao Shi,et al.  Double-Uncertainty Weighted Method for Semi-supervised Learning , 2020, MICCAI.

[20]  Guotai Wang,et al.  Semi-supervised Medical Image Segmentation through Dual-task Consistency , 2020, AAAI.

[21]  Xuming He,et al.  Shape-aware Semi-supervised 3D Semantic Segmentation for Medical Images , 2020, MICCAI.

[22]  Xin Zhang,et al.  HF-UNet: Learning Hierarchically Inter-Task Relevance in Multi-Task U-Net for Accurate Prostate Segmentation in CT Images , 2020, IEEE Transactions on Medical Imaging.

[23]  Oliver Burgert,et al.  DeepSeg: deep neural network framework for automatic brain tumor segmentation using magnetic resonance FLAIR images , 2020, International Journal of Computer Assisted Radiology and Surgery.

[24]  Yong Yin,et al.  Shape-Aware Organ Segmentation by Predicting Signed Distance Maps , 2019, AAAI.

[25]  Rohit Bakshi,et al.  Multiple Sclerosis Lesion Segmentation with Tiramisu and 2.5D Stacked Slices , 2019, MICCAI.

[26]  Yong Xia,et al.  D-UNet: A Dimension-Fusion U Shape Network for Chronic Stroke Lesion Segmentation , 2019, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[27]  Chi-Wing Fu,et al.  Uncertainty-aware Self-ensembling Model for Semi-supervised 3D Left Atrium Segmentation , 2019, MICCAI.

[28]  Ziv Yaniv,et al.  A Distance Map Regularized CNN for Cardiac Cine MR Image Segmentation , 2019, Medical physics.

[29]  Daniel Rueckert,et al.  Automatic 3D bi-ventricular segmentation of cardiac images by a shape-refined multi-task deep learning approach , 2018, IEEE Transactions on Medical Imaging.

[30]  Ramakanth Pasunuru,et al.  Dynamic Multi-Level Multi-Task Learning for Sentence Simplification , 2018, COLING.

[31]  Chi-Wing Fu,et al.  H-DenseUNet: Hybrid Densely Connected UNet for Liver and Tumor Segmentation From CT Volumes , 2018, IEEE Transactions on Medical Imaging.

[32]  Nassir Navab,et al.  Concurrent Spatial and Channel Squeeze & Excitation in Fully Convolutional Networks , 2018, MICCAI.

[33]  Sébastien Ourselin,et al.  Interactive Medical Image Segmentation Using Deep Learning With Image-Specific Fine Tuning , 2017, IEEE Transactions on Medical Imaging.

[34]  Ben Glocker,et al.  Semi-supervised Learning for Network-Based Cardiac MR Image Segmentation , 2017, MICCAI.

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

[36]  Xiao Han,et al.  Automatic Liver Lesion Segmentation Using A Deep Convolutional Neural Network Method , 2017, ArXiv.

[37]  Alex Kendall,et al.  What Uncertainties Do We Need in Bayesian Deep Learning for Computer Vision? , 2017, NIPS.

[38]  Harri Valpola,et al.  Weight-averaged consistency targets improve semi-supervised deep learning results , 2017, ArXiv.

[39]  Max A. Viergever,et al.  Deep Learning for Multi-Task Medical Image Segmentation in Multiple Modalities , 2016, MICCAI.

[40]  Timo Aila,et al.  Temporal Ensembling for Semi-Supervised Learning , 2016, ICLR.

[41]  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).

[42]  Yongxin Yang,et al.  Trace Norm Regularised Deep Multi-Task Learning , 2016, ICLR.

[43]  Brian B. Avants,et al.  The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS) , 2015, IEEE Transactions on Medical Imaging.

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

[45]  Frank Lindseth,et al.  Medical image segmentation on GPUs - A comprehensive review , 2015, Medical Image Anal..

[46]  Trevor Darrell,et al.  Rich Feature Hierarchies for Accurate Object Detection and Semantic Segmentation , 2013, 2014 IEEE Conference on Computer Vision and Pattern Recognition.

[47]  Yan Wang,et al.  Tripled-Uncertainty Guided Mean Teacher Model for Semi-supervised Medical Image Segmentation , 2021, MICCAI.

[48]  Nitish Srivastava,et al.  Dropout: a simple way to prevent neural networks from overfitting , 2014, J. Mach. Learn. Res..