# Volumetric Medical Image Segmentation via Scribble Annotations and Shape Priors

arXiv: https://arxiv.org/abs/2310.08084 · HTML: https://mlsanity.com/paper/2310.08084/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Builds on 37 of its 59 references that are in the map.
- First posted on arXiv 12 Oct 2023.

## Builds on (most cited first, 30 of 37)

- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [Segment Anything](https://mlsanity.com/paper/2304.02643/) (2023)
- [Image-to-Image Translation with Conditional Adversarial Networks](https://mlsanity.com/paper/1611.07004/) (2016)
- [DeepLab: Semantic Image Segmentation with Deep Convolutional Nets, Atrous Convolution, and Fully Connected CRFs](https://mlsanity.com/paper/1606.00915/) (2016)
- [UNet++: A Nested U-Net Architecture for Medical Image Segmentation](https://mlsanity.com/paper/1807.10165/) (2018)
- [Holistically-Nested Edge Detection](https://mlsanity.com/paper/1504.06375/) (2015)
- [Medical SAM Adapter: Adapting Segment Anything Model for Medical Image Segmentation](https://mlsanity.com/paper/2304.12620/) (2023)
- [ScribbleSup: Scribble-Supervised Convolutional Networks for Semantic Segmentation](https://mlsanity.com/paper/1604.05144/) (2016)
- [Learning Pixel-level Semantic Affinity with Image-level Supervision for Weakly Supervised Semantic Segmentation](https://mlsanity.com/paper/1803.10464/) (2018)
- [CHAOS Challenge -- Combined (CT-MR) Healthy Abdominal Organ Segmentation](https://mlsanity.com/paper/2001.06535/) (2020)
- [AbdomenCT-1K: Is Abdominal Organ Segmentation A Solved Problem?](https://mlsanity.com/paper/2010.14808/) (2020)
- [Conditional Random Fields as Recurrent Neural Networks](https://mlsanity.com/paper/1502.03240/) (2015)
- [A Topological Loss Function for Deep-Learning based Image Segmentation using Persistent Homology](https://mlsanity.com/paper/1910.01877/) (2019)
- [Deep Extreme Cut: From Extreme Points to Object Segmentation](https://mlsanity.com/paper/1711.09081/) (2017)
- [On Regularized Losses for Weakly-supervised CNN Segmentation](https://mlsanity.com/paper/1803.09569/) (2018)
- [Normalized Cut Loss for Weakly-supervised CNN Segmentation](https://mlsanity.com/paper/1804.01346/) (2018)
- [Anatomically Constrained Neural Networks (ACNN): Application to Cardiac Image Enhancement and Segmentation](https://mlsanity.com/paper/1705.08302/) (2017)
- [Weakly-Supervised Salient Object Detection via Scribble Annotations](https://mlsanity.com/paper/2003.07685/) (2020)
- [DeepCut: Object Segmentation from Bounding Box Annotations using Convolutional Neural Networks](https://mlsanity.com/paper/1605.07866/) (2016)
- [CycleMix: A Holistic Strategy for Medical Image Segmentation from Scribble Supervision](https://mlsanity.com/paper/2203.01475/) (2022)
- [Scribble-Supervised Medical Image Segmentation via Dual-Branch Network and Dynamically Mixed Pseudo Labels Supervision](https://mlsanity.com/paper/2203.02106/) (2022)
- [Constrained-CNN losses for weakly supervised segmentation](https://mlsanity.com/paper/1805.04628/) (2018)
- [W-Net: A Deep Model for Fully Unsupervised Image Segmentation](https://mlsanity.com/paper/1711.08506/) (2017)
- [Learning to Segment Medical Images with Scribble-Supervision Alone](https://mlsanity.com/paper/1807.04668/) (2018)
- [Anatomical Priors in Convolutional Networks for Unsupervised Biomedical Segmentation](https://mlsanity.com/paper/1903.03148/) (2019)
- [Post-DAE: Anatomically Plausible Segmentation via Post-Processing with Denoising Autoencoders](https://mlsanity.com/paper/2006.13791/) (2020)
- [Going to Extremes: Weakly Supervised Medical Image Segmentation](https://mlsanity.com/paper/2009.11988/) (2020)
- [Scribble-based Domain Adaptation via Co-segmentation](https://mlsanity.com/paper/2007.03632/) (2020)
- [Scribble-based Hierarchical Weakly Supervised Learning for Brain Tumor Segmentation](https://mlsanity.com/paper/1911.02014/) (2019)
- [Cardiac Segmentation from LGE MRI Using Deep Neural Network Incorporating Shape and Spatial Priors](https://mlsanity.com/paper/1906.07347/) (2019)

## Built on by (most cited first, 1 of 1)

- [ZScribbleSeg: A comprehensive segmentation framework with modeling of efficient annotation and maximization of scribble supervision](https://mlsanity.com/paper/2605.06266/) (2026)

## Abstract (arXiv)

Recently, weakly-supervised image segmentation using weak annotations like scribbles has gained great attention in computer vision and medical image analysis, since such annotations are much easier to obtain compared to time-consuming and labor-intensive labeling at the pixel/voxel level. However, due to a lack of structure supervision on regions of interest (ROIs), existing scribble-based methods suffer from poor boundary localization. Furthermore, most current methods are designed for 2D image segmentation, which do not fully leverage the volumetric information if directly applied to each image slice. In this paper, we propose a scribble-based volumetric image segmentation, Scribble2D5, which tackles 3D anisotropic image segmentation and aims to its improve boundary prediction. To achieve this, we augment a 2.5D attention UNet with a proposed label propagation module to extend semantic information from scribbles and use a combination of static and active boundary prediction to learn ROI's boundary and regularize its shape. Also, we propose an optional add-on component, which incorporates the shape prior information from unpaired segmentation masks to further improve model accuracy. Extensive experiments on three public datasets and one private dataset demonstrate our Scribble2D5 achieves state-of-the-art performance on volumetric image segmentation using scribbles and shape prior if available.