# A large annotated medical image dataset for the development and evaluation of segmentation algorithms

arXiv: https://arxiv.org/abs/1902.09063 · HTML: https://mlsanity.com/paper/1902.09063/

## Key facts

- Cited by 373 papers in the map (data through 14 Oct 2026).
- First posted on arXiv 25 Feb 2019.

## Built on by (most cited first, 30 of 373)

- [UNETR: Transformers for 3D Medical Image Segmentation](https://mlsanity.com/paper/2103.10504/) (2021)
- [Swin UNETR: Swin Transformers for Semantic Segmentation of Brain Tumors in MRI Images](https://mlsanity.com/paper/2201.01266/) (2022)
- [MedMNIST v2 -- A large-scale lightweight benchmark for 2D and 3D biomedical image classification](https://mlsanity.com/paper/2110.14795/) (2021)
- [The Medical Segmentation Decathlon](https://mlsanity.com/paper/2106.05735/) (2021)
- [SLAKE: A Semantically-Labeled Knowledge-Enhanced Dataset for Medical Visual Question Answering](https://mlsanity.com/paper/2102.09542/) (2021)
- [Self-Supervised Pre-Training of Swin Transformers for 3D Medical Image Analysis](https://mlsanity.com/paper/2111.14791/) (2021)
- [U-Mamba: Enhancing Long-range Dependency for Biomedical Image Segmentation](https://mlsanity.com/paper/2401.04722/) (2024)
- [Segment Anything Model for Medical Image Analysis: an Experimental Study](https://mlsanity.com/paper/2304.10517/) (2023)
- [TransFuse: Fusing Transformers and CNNs for Medical Image Segmentation](https://mlsanity.com/paper/2102.08005/) (2021)
- [Transformers in Medical Imaging: A Survey](https://mlsanity.com/paper/2201.09873/) (2022)
- [Metrics reloaded: Recommendations for image analysis validation](https://mlsanity.com/paper/2206.01653/) (2022)
- [Medical Image Segmentation Review: The success of U-Net](https://mlsanity.com/paper/2211.14830/) (2022)
- [M3D: Advancing 3D Medical Image Analysis with Multi-Modal Large Language Models](https://mlsanity.com/paper/2404.00578/) (2024)
- [UNETR++: Delving into Efficient and Accurate 3D Medical Image Segmentation](https://mlsanity.com/paper/2212.04497/) (2022)
- [GMAI-MMBench: A Comprehensive Multimodal Evaluation Benchmark Towards General Medical AI](https://mlsanity.com/paper/2408.03361/) (2024)
- [Medical Visual Question Answering: A Survey](https://mlsanity.com/paper/2111.10056/) (2021)
- [UniverSeg: Universal Medical Image Segmentation](https://mlsanity.com/paper/2304.06131/) (2023)
- [SegVol: Universal and Interactive Volumetric Medical Image Segmentation](https://mlsanity.com/paper/2311.13385/) (2023)
- [Federated Learning for Medical Image Analysis: A Survey](https://mlsanity.com/paper/2306.05980/) (2023)
- [Learning with Limited Annotations: A Survey on Deep Semi-Supervised Learning for Medical Image Segmentation](https://mlsanity.com/paper/2207.14191/) (2022)
- [Masked Image Modeling Advances 3D Medical Image Analysis](https://mlsanity.com/paper/2204.11716/) (2022)
- [Transferable Visual Words: Exploiting the Semantics of Anatomical Patterns for Self-supervised Learning](https://mlsanity.com/paper/2102.10680/) (2021)
- [Graph-Based Deep Learning for Medical Diagnosis and Analysis: Past, Present and Future](https://mlsanity.com/paper/2105.13137/) (2021)
- [nnDetection: A Self-configuring Method for Medical Object Detection](https://mlsanity.com/paper/2106.00817/) (2021)
- [LVM-Med: Learning Large-Scale Self-Supervised Vision Models for Medical Imaging via Second-order Graph Matching](https://mlsanity.com/paper/2306.11925/) (2023)
- [SA-Med2D-20M Dataset: Segment Anything in 2D Medical Imaging with 20 Million masks](https://mlsanity.com/paper/2311.11969/) (2023)
- [AbdomenAtlas-8K: Annotating 8,000 CT Volumes for Multi-Organ Segmentation in Three Weeks](https://mlsanity.com/paper/2305.09666/) (2023)
- [DiNTS: Differentiable Neural Network Topology Search for 3D Medical Image Segmentation](https://mlsanity.com/paper/2103.15954/) (2021)
- [AFTer-UNet: Axial Fusion Transformer UNet for Medical Image Segmentation](https://mlsanity.com/paper/2110.10403/) (2021)
- [ScribblePrompt: Fast and Flexible Interactive Segmentation for Any Biomedical Image](https://mlsanity.com/paper/2312.07381/) (2023)

## Abstract (arXiv)

Semantic segmentation of medical images aims to associate a pixel with a label in a medical image without human initialization. The success of semantic segmentation algorithms is contingent on the availability of high-quality imaging data with corresponding labels provided by experts. We sought to create a large collection of annotated medical image datasets of various clinically relevant anatomies available under open source license to facilitate the development of semantic segmentation algorithms. Such a resource would allow: 1) objective assessment of general-purpose segmentation methods through comprehensive benchmarking and 2) open and free access to medical image data for any researcher interested in the problem domain. Through a multi-institutional effort, we generated a large, curated dataset representative of several highly variable segmentation tasks that was used in a crowd-sourced challenge - the Medical Segmentation Decathlon held during the 2018 Medical Image Computing and Computer Aided Interventions Conference in Granada, Spain. Here, we describe these ten labeled image datasets so that these data may be effectively reused by the research community.