# SAM3D: Zero-Shot Semi-Automatic Segmentation in 3D Medical Images with the Segment Anything Model

arXiv: https://arxiv.org/abs/2405.06786 · HTML: https://mlsanity.com/paper/2405.06786/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Builds on 9 of its 33 references that are in the map.
- First posted on arXiv 10 May 2024.

## Builds on (most cited first, 9 of 9)

- [Segment Anything](https://mlsanity.com/paper/2304.02643/) (2023)
- [TotalSegmentator: robust segmentation of 104 anatomical structures in CT images](https://mlsanity.com/paper/2208.05868/) (2022)
- [Medical SAM Adapter: Adapting Segment Anything Model for Medical Image Segmentation](https://mlsanity.com/paper/2304.12620/) (2023)
- [Segment Anything Model for Medical Image Analysis: an Experimental Study](https://mlsanity.com/paper/2304.10517/) (2023)
- ['Squeeze & Excite' Guided Few-Shot Segmentation of Volumetric Images](https://mlsanity.com/paper/1902.01314/) (2019)
- [Towards Data-Efficient Learning: A Benchmark for COVID-19 CT Lung and Infection Segmentation](https://mlsanity.com/paper/2004.12537/) (2020)
- [SAMM (Segment Any Medical Model): A 3D Slicer Integration to SAM](https://mlsanity.com/paper/2304.05622/) (2023)
- [AnyStar: Domain randomized universal star-convex 3D instance segmentation](https://mlsanity.com/paper/2307.07044/) (2023)
- [DeepEdit: Deep Editable Learning for Interactive Segmentation of 3D Medical Images](https://mlsanity.com/paper/2305.10655/) (2023)

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

- [Atlas-Assisted Segment Anything Model for Fetal Brain MRI (FeTal-SAM)](https://mlsanity.com/paper/2601.15759/) (2026)

## Abstract (arXiv)

We introduce SAM3D, a new approach to semi-automatic zero-shot segmentation of 3D images building on the existing Segment Anything Model. We achieve fast and accurate segmentations in 3D images with a four-step strategy involving: user prompting with 3D polylines, volume slicing along multiple axes, slice-wide inference with a pretrained model, and recomposition and refinement in 3D. We evaluated SAM3D performance qualitatively on an array of imaging modalities and anatomical structures and quantify performance for specific structures in abdominal pelvic CT and brain MRI. Notably, our method achieves good performance with zero model training or finetuning, making it particularly useful for tasks with a scarcity of preexisting labeled data. By enabling users to create 3D segmentations of unseen data quickly and with dramatically reduced manual input, these methods have the potential to aid surgical planning and education, diagnostic imaging, and scientific research.