# Nuclei Segmentation with Point Annotations from Pathology Images via Self-Supervised Learning and Co-Training

arXiv: https://arxiv.org/abs/2202.08195 · HTML: https://mlsanity.com/paper/2202.08195/

## Key facts

- Cited by 16 papers in the map (data through 14 Oct 2026).
- Builds on 34 of its 65 references that are in the map.
- First posted on arXiv 16 Feb 2022.

## Builds on (most cited first, 30 of 34)

- [Deep Residual Learning for Image Recognition](https://mlsanity.com/paper/1512.03385/) (2015)
- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [A Simple Framework for Contrastive Learning of Visual Representations](https://mlsanity.com/paper/2002.05709/) (2020)
- [ImageNet Large Scale Visual Recognition Challenge](https://mlsanity.com/paper/1409.0575/) (2014)
- [Representation Learning with Contrastive Predictive Coding](https://mlsanity.com/paper/1807.03748/) (2018)
- [Momentum Contrast for Unsupervised Visual Representation Learning](https://mlsanity.com/paper/1911.05722/) (2019)
- [Fully Convolutional Networks for Semantic Segmentation](https://mlsanity.com/paper/1411.4038/) (2014)
- [Bootstrap your own latent: A new approach to self-supervised Learning](https://mlsanity.com/paper/2006.07733/) (2020)
- [DeepLab: Semantic Image Segmentation with Deep Convolutional Nets, Atrous Convolution, and Fully Connected CRFs](https://mlsanity.com/paper/1606.00915/) (2016)
- [Pyramid Scene Parsing Network](https://mlsanity.com/paper/1612.01105/) (2016)
- [Panoptic Segmentation](https://mlsanity.com/paper/1801.00868/) (2018)
- [Dual-stream Multiple Instance Learning Network for Whole Slide Image Classification with Self-supervised Contrastive Learning](https://mlsanity.com/paper/2011.08939/) (2020)
- [BBN: Bilateral-Branch Network with Cumulative Learning for Long-Tailed Visual Recognition](https://mlsanity.com/paper/1912.02413/) (2019)
- [HoVer-Net: Simultaneous Segmentation and Classification of Nuclei in Multi-Tissue Histology Images](https://mlsanity.com/paper/1812.06499/) (2018)
- [Rethinking ImageNet Pre-training](https://mlsanity.com/paper/1811.08883/) (2018)
- [Cell Detection with Star-convex Polygons](https://mlsanity.com/paper/1806.03535/) (2018)
- [Deep Co-Training for Semi-Supervised Image Recognition](https://mlsanity.com/paper/1803.05984/) (2018)
- [Self-Path: Self-supervision for Classification of Pathology Images with Limited Annotations](https://mlsanity.com/paper/2008.05571/) (2020)
- [Methods for Segmentation and Classification of Digital Microscopy Tissue Images](https://mlsanity.com/paper/1810.13230/) (2018)
- [Micro-Net: A unified model for segmentation of various objects in microscopy images](https://mlsanity.com/paper/1804.08145/) (2018)
- [Weakly Supervised Deep Nuclei Segmentation Using Partial Points Annotation in Histopathology Images](https://mlsanity.com/paper/2007.05448/) (2020)
- [CIA-Net: Robust Nuclei Instance Segmentation with Contour-aware Information Aggregation](https://mlsanity.com/paper/1903.05358/) (2019)
- [Scribble2Label: Scribble-Supervised Cell Segmentation via Self-Generating Pseudo-Labels with Consistency](https://mlsanity.com/paper/2006.12890/) (2020)
- [Self-supervised driven consistency training for annotation efficient histopathology image analysis](https://mlsanity.com/paper/2102.03897/) (2021)
- [PseudoEdgeNet: Nuclei Segmentation only with Point Annotations](https://mlsanity.com/paper/1906.02924/) (2019)
- [Instance-aware Self-supervised Learning for Nuclei Segmentation](https://mlsanity.com/paper/2007.11186/) (2020)
- [Multi-organ Segmentation via Co-training Weight-averaged Models from Few-organ Datasets](https://mlsanity.com/paper/2008.07149/) (2020)
- [Discriminative Localization in CNNs for Weakly-Supervised Segmentation of Pulmonary Nodules](https://mlsanity.com/paper/1707.01086/) (2017)
- [Multi-scale fully convolutional neural networks for histopathology image segmentation: from nuclear aberrations to the global tissue architecture](https://mlsanity.com/paper/1909.10726/) (2019)
- [Self-paced and self-consistent co-training for semi-supervised image segmentation](https://mlsanity.com/paper/2011.00325/) (2020)

## Built on by (most cited first, 16 of 16)

- [WSSS4LUAD: Grand Challenge on Weakly-supervised Tissue Semantic Segmentation for Lung Adenocarcinoma](https://mlsanity.com/paper/2204.06455/) (2022)
- [NuInsSeg: A Fully Annotated Dataset for Nuclei Instance Segmentation in H&E-Stained Histological Images](https://mlsanity.com/paper/2308.01760/) (2023)
- [Label-Efficient Deep Learning in Medical Image Analysis: Challenges and Future Directions](https://mlsanity.com/paper/2303.12484/) (2023)
- [BoNuS: Boundary Mining for Nuclei Segmentation with Partial Point Labels](https://mlsanity.com/paper/2401.07437/) (2024)
- [Data efficient deep learning for medical image analysis: A survey](https://mlsanity.com/paper/2310.06557/) (2023)
- [Revisiting Deep Ensemble Uncertainty for Enhanced Medical Anomaly Detection](https://mlsanity.com/paper/2409.17485/) (2024)
- [Few-Shot Learning for Annotation-Efficient Nucleus Instance Segmentation](https://mlsanity.com/paper/2402.16280/) (2024)
- [Rethinking Boundary Detection in Deep Learning-Based Medical Image Segmentation](https://mlsanity.com/paper/2505.04652/) (2025)
- [Supervise Less, See More: Training-free Nuclear Instance Segmentation with Prototype-Guided Prompting](https://mlsanity.com/paper/2511.19953/) (2025)
- [EP-SAM: Weakly Supervised Histopathology Segmentation via Enhanced Prompt with Segment Anything](https://mlsanity.com/paper/2410.13621/) (2024)
- [Tissue Aware Nuclei Detection and Classification Model for Histopathology Images](https://mlsanity.com/paper/2511.13615/) (2025)
- [Rethinking Barely-Supervised Volumetric Medical Image Segmentation from an Unsupervised Domain Adaptation Perspective](https://mlsanity.com/paper/2405.09777/) (2024)
- [Leveraging Weak Supervision for Cell Localization in Digital Pathology Using Multitask Learning and Consistency Loss](https://mlsanity.com/paper/2412.15392/) (2024)
- [LG-NuSegHop: A Local-to-Global Self-Supervised Pipeline For Nuclei Instance Segmentation](https://mlsanity.com/paper/2511.04892/) (2025)
- [CellGenNet: A Knowledge-Distilled Framework for Robust Cell Segmentation in Cancer Tissues](https://mlsanity.com/paper/2511.15054/) (2025)
- [ZScribbleSeg: A comprehensive segmentation framework with modeling of efficient annotation and maximization of scribble supervision](https://mlsanity.com/paper/2605.06266/) (2026)

## Abstract (arXiv)

Nuclei segmentation is a crucial task for whole slide image analysis in digital pathology. Generally, the segmentation performance of fully-supervised learning heavily depends on the amount and quality of the annotated data. However, it is time-consuming and expensive for professional pathologists to provide accurate pixel-level ground truth, while it is much easier to get coarse labels such as point annotations. In this paper, we propose a weakly-supervised learning method for nuclei segmentation that only requires point annotations for training. First, coarse pixel-level labels are derived from the point annotations based on the Voronoi diagram and the k-means clustering method to avoid overfitting. Second, a co-training strategy with an exponential moving average method is designed to refine the incomplete supervision of the coarse labels. Third, a self-supervised visual representation learning method is tailored for nuclei segmentation of pathology images that transforms the hematoxylin component images into the H&E stained images to gain better understanding of the relationship between the nuclei and cytoplasm. We comprehensively evaluate the proposed method using two public datasets. Both visual and quantitative results demonstrate the superiority of our method to the state-of-the-art methods, and its competitive performance compared to the fully-supervised methods. Code: https://github.com/hust-linyi/SC-Net