# Guidelines for Cerebrovascular Segmentation: Managing Imperfect Annotations in the context of Semi-Supervised Learning

arXiv: https://arxiv.org/abs/2404.01765 · HTML: https://mlsanity.com/paper/2404.01765/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 25 of its 44 references that are in the map.
- First posted on arXiv 2 Apr 2024.

## Builds on (most cited first, 25 of 25)

- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [V-Net: Fully Convolutional Neural Networks for Volumetric Medical Image Segmentation](https://mlsanity.com/paper/1606.04797/) (2016)
- [TransUNet: Transformers Make Strong Encoders for Medical Image Segmentation](https://mlsanity.com/paper/2102.04306/) (2021)
- [Swin UNETR: Swin Transformers for Semantic Segmentation of Brain Tumors in MRI Images](https://mlsanity.com/paper/2201.01266/) (2022)
- [Uncertainty-aware Self-ensembling Model for Semi-supervised 3D Left Atrium Segmentation](https://mlsanity.com/paper/1907.07034/) (2019)
- [clDice -- A Novel Topology-Preserving Loss Function for Tubular Structure Segmentation](https://mlsanity.com/paper/2003.07311/) (2020)
- [Transformers in Medical Imaging: A Survey](https://mlsanity.com/paper/2201.09873/) (2022)
- [Semi-supervised Medical Image Segmentation through Dual-task Consistency](https://mlsanity.com/paper/2009.04448/) (2020)
- [Medical Image Segmentation Review: The success of U-Net](https://mlsanity.com/paper/2211.14830/) (2022)
- [Shape-aware Semi-supervised 3D Semantic Segmentation for Medical Images](https://mlsanity.com/paper/2007.10732/) (2020)
- [Bidirectional Copy-Paste for Semi-Supervised Medical Image Segmentation](https://mlsanity.com/paper/2305.00673/) (2023)
- [An introduction to domain adaptation and transfer learning](https://mlsanity.com/paper/1812.11806/) (2018)
- [Semi-supervised Left Atrium Segmentation with Mutual Consistency Training](https://mlsanity.com/paper/2103.02911/) (2021)
- [Semi-Supervised Medical Image Segmentation via Cross Teaching between CNN and Transformer](https://mlsanity.com/paper/2112.04894/) (2021)
- [Deep Unsupervised Domain Adaptation: A Review of Recent Advances and Perspectives](https://mlsanity.com/paper/2208.07422/) (2022)
- [SimCVD: Simple Contrastive Voxel-Wise Representation Distillation for Semi-Supervised Medical Image Segmentation](https://mlsanity.com/paper/2108.06227/) (2021)
- [Learning with Limited Annotations: A Survey on Deep Semi-Supervised Learning for Medical Image Segmentation](https://mlsanity.com/paper/2207.14191/) (2022)
- [Inconsistency-aware Uncertainty Estimation for Semi-supervised Medical Image Segmentation](https://mlsanity.com/paper/2110.08762/) (2021)
- [3D Semi-Supervised Learning with Uncertainty-Aware Multi-View Co-Training](https://mlsanity.com/paper/1811.12506/) (2018)
- [CS2-Net: Deep Learning Segmentation of Curvilinear Structures in Medical Imaging](https://mlsanity.com/paper/2010.07486/) (2020)
- [The TopCoW Challenge -- Topology-Aware Circle of Willis Segmentation for CT and MR Angiography](https://mlsanity.com/paper/2312.17670/) (2023)
- [Pseudo-label refinement using superpixels for semi-supervised brain tumour segmentation](https://mlsanity.com/paper/2110.08589/) (2021)
- [Semi-Supervised Semantic Segmentation of Vessel Images using Leaking Perturbations](https://mlsanity.com/paper/2110.11998/) (2021)
- [Cerebrovascular Network Segmentation on MRA Images with Deep Learning](https://mlsanity.com/paper/1812.01752/) (2018)
- [JoB-VS: Joint Brain-Vessel Segmentation in TOF-MRA Images](https://mlsanity.com/paper/2304.07744/) (2023)

## Abstract (arXiv)

Segmentation in medical imaging is an essential and often preliminary task in the image processing chain, driving numerous efforts towards the design of robust segmentation algorithms. Supervised learning methods achieve excellent performances when fed with a sufficient amount of labeled data. However, such labels are typically highly time-consuming, error-prone and expensive to produce. Alternatively, semi-supervised learning approaches leverage both labeled and unlabeled data, and are very useful when only a small fraction of the dataset is labeled. They are particularly useful for cerebrovascular segmentation, given that labeling a single volume requires several hours for an expert. In addition to the challenge posed by insufficient annotations, there are concerns regarding annotation consistency. The task of annotating the cerebrovascular tree is inherently ambiguous. Due to the discrete nature of images, the borders and extremities of vessels are often unclear. Consequently, annotations heavily rely on the expert subjectivity and on the underlying clinical objective. These discrepancies significantly increase the complexity of the segmentation task for the model and consequently impair the results. Consequently, it becomes imperative to provide clinicians with precise guidelines to improve the annotation process and construct more uniform datasets. In this article, we investigate the data dependency of deep learning methods within the context of imperfect data and semi-supervised learning, for cerebrovascular segmentation. Specifically, this study compares various state-of-the-art semi-supervised methods based on unsupervised regularization and evaluates their performance in diverse quantity and quality data scenarios. Based on these experiments, we provide guidelines for the annotation and training of cerebrovascular segmentation models.