Inter- and intra-uncertainty based feature aggregation model for semi-supervised histopathology image segmentation
Abstract: Acquiring pixel-level annotations is often limited in applications such as histology studies that require domain expertise. Various semi-supervised learning approaches have been developed to work with limited ground truth annotations, such as the popular teacher-student models. However, hierarchical prediction uncertainty within the student model (intra-uncertainty) and image prediction uncertainty (inter-uncertainty) have not been fully utilized by existing methods. To address these issues, we first propose a novel inter- and intra-uncertainty regularization method to measure and constrain both inter- and intra-inconsistencies in the teacher-student architecture. We also propose a new two-stage network with pseudo-mask guided feature aggregation (PG-FANet) as the segmentation model. The two-stage structure complements with the uncertainty regularization strategy to avoid introducing extra modules in solving uncertainties and the aggregation mechanisms enable multi-scale and multi-stage feature integration. Comprehensive experimental results over the MoNuSeg and CRAG datasets show that our PG-FANet outperforms other state-of-the-art methods and our semi-supervised learning framework yields competitive performance with a limited amount of labeled data.
- Nuclei segmentation with recurrent residual convolutional neural networks based U-Net (R2U-Net). In NAECON 2018-IEEE National Aerospace and Electronics Conference (pp. 228–233). IEEE.
- Glandular morphometrics for objective grading of colorectal adenocarcinoma histology images. Scientific Reports, 7, 1–12.
- Bidirectional Copy-Paste for Semi-Supervised Medical Image Segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 11514–11524).
- Pseudo-label guided contrastive learning for semi-supervised medical image segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 19786–19797).
- Auto-DenseUNet: Searchable neural network architecture for mass segmentation in 3D automated breast ultrasound. Medical Image Analysis, 82, 102589.
- Local contrastive loss with pseudo-label based self-training for semi-supervised medical image segmentation. Medical Image Analysis, 87, 102792.
- LinkNet: Exploiting encoder representations for efficient semantic segmentation. In 2017 IEEE Visual Communications and Image Processing (VCIP) (pp. 1–4). IEEE.
- DCAN: deep contour-aware networks for accurate gland segmentation. In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition (pp. 2487–2496).
- Enhancing Nucleus Segmentation with HARU-Net: A Hybrid Attention Based Residual U-Blocks Network. arXiv preprint arXiv:2308.03382, .
- Searching for efficient multi-scale architectures for dense image prediction. In Advances in Neural Information Processing Systems (pp. 8699–8710).
- DeepLab: Semantic image segmentation with deep convolutional nets, atrous convolution, and fully connected CRFs. IEEE Transactions on Pattern Analysis and Machine Intelligence, 40, 834–848.
- Semi-supervised semantic segmentation with cross pseudo supervision. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 2613–2622).
- DeepMC-iNABP: Deep learning for multiclass identification and classification of nucleic acid-binding proteins. Computational and Structural Biotechnology Journal, 20, 2020–2028.
- ImageNet: A large-scale hierarchical image database. In 2009 IEEE Conference on Computer Vision and Pattern Recognition (pp. 248–255). IEEE.
- PnP-AdaNet: Plug-and-Play Adversarial Domain Adaptation Network at Unpaired Cross-Modality Cardiac Segmentation. IEEE Access, 7, 99065–99076. doi:10.1109/ACCESS.2019.2929258.
- Dropout as a Bayesian approximation: Representing model uncertainty in deep learning. In International Conference on Machine Learning (pp. 1050–1059).
- A data-scalable transformer for medical image segmentation: architecture, model efficiency, and benchmark. arXiv preprint arXiv:2203.00131, .
- MILD-Net: minimal information loss dilated network for gland instance segmentation in colon histology images. Medical Image Analysis, 52, 199–211.
- Contrastive semi-supervised learning for domain adaptive segmentation across similar anatomical structures. IEEE Transactions on Medical Imaging, 42, 245–256.
- Evaluating scalable Bayesian deep learning methods for robust computer vision. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (pp. 318–319).
- Delving deep into rectifiers: Surpassing human-level performance on imagenet classification. In Proceedings of the IEEE International Conference on Computer Vision (pp. 1026–1034).
- Deep residual learning for image recognition. In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition (pp. 770–778).
- MultiResUNet: Rethinking the U-Net architecture for multimodal biomedical image segmentation. Neural Networks, 121, 74–87.
- Batch normalization: Accelerating deep network training by reducing internal covariate shift. arXiv preprint arXiv:1502.03167, .
- Cellular community detection for tissue phenotyping in colorectal cancer histology images. Medical Image Analysis, 63, 101696.
- UXNet: Searching Multi-level Feature Aggregation for 3D Medical Image Segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 346–356). Springer.
- DoNet: Deep De-overlapping Network for Cytology Instance Segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 15641–15650).
- Semi-supervised histological image segmentation via hierarchical consistency enforcement. In International Conference on Medical Image Computing and Computer-Assisted Intervention (pp. 3–13). Springer.
- What uncertainties do we need in Bayesian deep learning for computer vision? In Advances in Neural Information Processing Systems (pp. 5574–5584).
- A multi-organ nucleus segmentation challenge. IEEE Transactions on Medical Imaging, 39, 1380–1391.
- Uncertainty quantification using Bayesian neural networks in classification: Application to biomedical image segmentation. Computational Statistics & Data Analysis, 142, 106816.
- Semi-supervised medical image segmentation using adversarial consistency learning and dynamic convolution network. IEEE Transactions on Medical Imaging, .
- DFANet: Deep feature aggregation for real-time semantic segmentation. In Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition (pp. 9522–9531).
- Dual-teacher: Integrating intra-domain and inter-domain teachers for annotation-efficient cardiac segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 418–427). Springer.
- Transformation-consistent self-ensembling model for semi-supervised medical image segmentation. IEEE Transactions on Neural Networks and Learning Systems, (pp. 1–12).
- Self-loop uncertainty: A novel pseudo-label for semi-supervised medical image segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 614–623). Springer.
- NPCNet: jointly segment primary nasopharyngeal carcinoma tumors and metastatic lymph nodes in MR images. IEEE Transactions on Medical Imaging, 41, 1639–1650.
- Nuclei Segmentation via a Deep Panoptic Model with Semantic Feature Fusion. In Proceedings of the Twenty-Eighth International Joint Conference on Artificial Intelligence, IJCAI-19 (pp. 861–868). doi:10.24963/ijcai.2019/121.
- Feature-driven local cell graph (FLocK): new computational pathology-based descriptors for prognosis of lung cancer and HPV status of oropharyngeal cancers. Medical Image Analysis, 68, 101903.
- Semi-supervised medical image segmentation via uncertainty rectified pyramid consistency. Medical Image Analysis, 80, 102517.
- M-Net: A convolutional neural network for deep brain structure segmentation. In 2017 IEEE 14th International Symposium on Biomedical Imaging (ISBI 2017) (pp. 437–440). IEEE.
- Bayesian Networks and Decision Graphs. Springer Science & Business Media.
- U2-Net: Going deeper with nested U-structure for salient object detection. Pattern Recognition, 106, 107404.
- Improving nuclei/gland instance segmentation in histopathology images by full resolution neural network and spatial constrained loss. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 378–386). Springer.
- Micro-Net: A unified model for segmentation of various objects in microscopy images. Medical Image Analysis, 52, 160–173.
- U-Net: Convolutional networks for biomedical image segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 234–241). Springer.
- Semi-supervised pixel contrastive learning framework for tissue segmentation in histopathological image. IEEE Journal of Biomedical and Health Informatics, 27, 97–108.
- Robust cell detection and segmentation in histopathological images using sparse reconstruction and stacked denoising autoencoders. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 383–390). Springer.
- Triplanar ensemble U-Net model for white matter hyperintensities segmentation on MR images. Medical Image Analysis, 73, 102184.
- Mean teachers are better role models: Weight-averaged consistency targets improve semi-supervised deep learning results. In Advances in Neural Information Processing Systems (pp. 1195–1204).
- Interpolation Consistency Training for Semi-supervised Learning. In Proceedings of the 28th International Joint Conference on Artificial Intelligence IJCAI’19 (pp. 3635–3641). AAAI Press.
- Aleatoric uncertainty estimation with test-time augmentation for medical image segmentation with convolutional neural networks. Neurocomputing, 338, 34–45.
- Tripled-uncertainty guided mean teacher model for semi-supervised medical image segmentation. In Medical Image Computing and Computer Assisted Intervention (pp. 450–460). Springer.
- Semi-supervised medical image segmentation via a tripled-uncertainty guided mean teacher model with contrastive learning. Medical Image Analysis, 79, 102447.
- Dual Multiscale Mean Teacher Network for Semi-Supervised Infection Segmentation in Chest CT Volume for COVID-19. IEEE Transactions on Cybernetics, 53, 6363–6375.
- Double-Uncertainty Weighted Method for Semi-supervised Learning. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 542–551). Springer.
- 3D segmentation with exponential logarithmic loss for highly unbalanced object sizes. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 612–619). Springer.
- Cross-patch dense contrastive learning for semi-supervised segmentation of cellular nuclei in histopathologic images. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 11666–11675).
- Mutual consistency learning for semi-supervised medical image segmentation. Medical Image Analysis, 81, 102530.
- BiO-Net: Learning Recurrent Bi-directional Connections for Encoder-Decoder Architecture. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 74–84). Springer.
- Towards bi-directional skip connections in encoder-decoder architectures and beyond. Medical Image Analysis, 78, 102420.
- Deep Segmentation-Emendation Model for Gland Instance Segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 469–477). Springer.
- Pairwise Relation Learning for Semi-supervised Gland Segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 417–427). Springer.
- BMAnet: Boundary mining with adversarial learning for semi-supervised 2D myocardial infarction segmentation. IEEE Journal of Biomedical and Health Informatics, 27, 87–96.
- Asymmetric multi-task attention network for prostate bed segmentation in computed tomography images. Medical Image Analysis, 72, 102116.
- Ambiguity-selective consistency regularization for mean-teacher semi-supervised medical image segmentation. Medical Image Analysis, 88, 102880.
- PreTP-2L: Identification of therapeutic peptides and their types using two-layer ensemble learning framework. Bioinformatics, 39, btad125.
- sAMPpred-GAT: prediction of antimicrobial peptide by graph attention network and predicted peptide structure. Bioinformatics, 39, btac715.
- ADS_UNet: A nested UNet for histopathology image segmentation. Expert Systems with Applications, 226, 120128.
- Directional connectivity-based segmentation of medical images. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 11525–11535).
- Context prior for scene segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 12416–12425).
- Multi-scale context aggregation by dilated convolutions. arXiv preprint arXiv:1511.07122, .
- Uncertainty-aware self-ensembling model for semi-supervised 3D left atrium segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 605–613). Springer.
- UNesT: local spatial representation learning with hierarchical transformer for efficient medical segmentation. Medical Image Analysis, 90, 102939.
- Attention Residual Learning for Skin Lesion Classification. IEEE Transactions on Medical Imaging, 38, 2092–2103.
- Multi-modal contrastive mutual learning and pseudo-label re-learning for semi-supervised medical image segmentation. Medical Image Analysis, 83, 102656.
- Deep adversarial networks for biomedical image segmentation utilizing unannotated images. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 408–416). Springer.
- Triple U-Net: Hematoxylin-aware nuclei segmentation with progressive dense feature aggregation. Medical Image Analysis, 65, 101786.
- RCPS: Rectified contrastive pseudo supervision for semi-supervised medical image segmentation. arXiv preprint arXiv:2301.05500, .
- Cartilage segmentation in high-resolution 3D micro-CT images via uncertainty-guided self-training with very sparse annotation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 802–812). Springer.
- A new ensemble learning framework for 3D biomedical image segmentation. In Proceedings of the AAAI Conference on Artificial Intelligence (pp. 5909–5916). volume 33.
- Double noise mean teacher self-ensembling model for semi-supervised tumor segmentation. In ICASSP 2022-2022 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP) (pp. 1446–1450). IEEE.
- Rectifying pseudo label learning via uncertainty estimation for domain adaptive semantic segmentation. International Journal of Computer Vision, 129, 1106–1120.
- Squeeze-and-attention networks for semantic segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 13065–13074).
- Deep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation. In International Conference on Medical Image Computing and Computer Assisted Intervention (pp. 521–531). Springer.
- Hybrid Dual Mean-Teacher Network With Double-Uncertainty Guidance for Semi-Supervised Segmentation of MRI Scans. arXiv preprint arXiv:2303.05126, .
Paper Prompts
Sign up for free to create and run prompts on this paper using GPT-5.
Top Community Prompts
Collections
Sign up for free to add this paper to one or more collections.