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State-of-the-art medical image segmentation methods based on various challenges! (Updated 201910)

Contents

Head

2019 MICCAI: Multimodal Brain Tumor Segmentation Challenge (BraTS2019) (Ongoing!!!)

2019 MICCAI: 6-month Infant Brain MRI Segmentation from Multiple Sites (iSeg2019) (Results)

2019 MICCAI: Automatic Structure Segmentation for Radiotherapy Planning Challenge (Results)

2018 MICCAI: Multimodal Brain Tumor Segmentation Challenge

2018 MICCAI: Ischemic stroke lesion segmentation

2018 MICCAI Grand Challenge on MR Brain Image Segmentation

Chest & Abdomen

2019 MICCAI: VerSe2019: Large Scale Vertebrae Segmentation Challenge (Ongoing!!!)

2019 MICCAI: Multi-sequence Cardiac MR Segmentation Challenge

2018 MICCAI: Left Ventricle Full Quantification Challenge

2018 MICCAI: Atrial Segmentation Challenge

2019 MICCAI: Kidney Tumor Segmentation Challenge

2019 ISBI: Segmentation of THoracic Organs at Risk in CT images

2017 ISBI & MICCAI: Liver tumor segmentation challenge

2012 MICCAI: Prostate MR Image Segmentation

Others

2018 MICCAI Medical Segmentation Decathlon

Awesome Open Source Tools

Loss functions for class imbalanced Problems

Head

2019 MICCAI: Multimodal Brain Tumor Segmentation Challenge (BraTS2019) (Ongoing!!!)

2019 MICCAI: 6-month Infant Brain MRI Segmentation from Multiple Sites (iSeg2019) (Results)

2019 MICCAI: Structure Segmentation for Radiotherapy Planning (StructSeg)

Date

First Author

Title

Head & Neck OAR

Head & Neck GTV

Chest OAR

Chest GTV

20191001

Huai Chen

TBD

0.8109

0.6666

0.9011

0.5406

20191001

nnU-Net

0.7988

0.6398

0.9083

0.5343

20191001

Yujin Hu

TBD

0.7956

0.6245

0.9024

0.5447

20191001

Xuechen Liu

TBD

-

-

0.9066

-

Heart

2019 MICCAI: Multi-sequence Cardiac MR Segmentation Challenge (MS-CMRSeg)

Multi-sequence ventricle and myocardium segmentation.

Date

First Author

Title

LV

Myo

RV

20190821

Unsupervised Multi-modal Style Transfer for Cardiac MR Segmentation (arxiv)

0.92

0.83

0.88

Chest and Abdomen

Date

First Author

Title

Dice

20190905

Aimoldin Anuar

SIIM-ACR Pneumothorax Challenge - 1st place solution (pytorch)

0.8679

2019 MICCAI: Kidney Tumor Segmentation Challenge (KiTS19)

Date

First Author

Title

Composite Dice

Kidney Dice

Tumor Dice

Remark

20190730

An attempt at beating the 3D U-Net (paper)

0.9123

0.9737

0.8509

1st Place

20190730

Xiaoshuai Hou

Cascaded Semantic Segmentation for Kidney and Tumor (paper)

0.9064

0.9674

0.8454

2nd Place

20190730

Guangrui Mu

Segmentation of kidney tumor by multi-resolution VB-nets (paper)

0.9025

0.9729

0.8321

3rd Place

2019 ISBI: Segmentation of THoracic Organs at Risk in CT images (SegTHOR)

Date

First Author

Title

Esophagus

Heart

Trachea

Aorta

20190320

Miaofei Han

Segmentation of CT thoracic organs by multi-resolution VB-nets (paper)

86

95

92

94

20190606

Extreme Points Derived Confidence Map as a Cue For Class-Agnostic Segmentation Using Deep Neural Network (paper)

89.87

95.97

91.87

94

2017 ISBI & MICCAI: Liver tumor segmentation challenge (LiTS)

Summary: The Liver Tumor Segmentation Benchmark (LiTS), Patrick Bilic et al. 201901 (arxiv)

Date

First Author

Title

Liver Dice

Tumor Dice

201709

H-DenseUNet: Hybrid Densely Connected UNet for Liver and Tumor Segmentation from CT Volumes, (paper), (Keras code)

0.961

0.722

2012 MICCAI: Prostate MR Image Segmentation (PROMISE12)

Date

First Author

Title

Whole Dice

Overall Score

201904

Anonymous

3D segmentation and 2D boundary network (paper)

-

90.34

201902

Qikui Zhu

Boundary-weighted Domain Adaptive Neural Network for Prostate MR Image Segmentation (paper)

91.41

89.59

Others

Recent results can be found here.

Task

Data Info

Fabian Isensee et al. (paper)

Yingda Xia et al. (paper)

Brats

Multimodal multisite MRI data (FLAIR, T1w, T1gd,T2w), (484 Training + 266 Testing)

0.68/0.48/0.68

0.675/0.45/0.68

0.68/0.48/0.69

Heart

Mono-modal MRI (20 Training + 10 Testing)

0.93

0.92

0.93

Hippocampus head and body

Mono-modal MRI (263 Training + 131 Testing)

0.90/0.89

0.88/0.87

0.89/0.88

Liver & Tumor

Portal venous phase CT (131 Training + 70 Testing)

0.95/0.74

0.95/0.71

0.95/0.74

Lung

CT (64 Training + 32 Testing)

0.69

0.52

0.73

Pancreas & Tumor

Portal venous phase CT (282 Training +139 Testing)

0.80/0.52

0.78/0.39

0.81/0.56

Prostate central gland and peripheral

Multimodal MR (T2, ADC) (32 Training + 16 Testing)

0.76/0.90

0.69/0.867

0.75/0.89

Hepatic vessel& Tumor

CT, (303 Training + 140 Testing)

0.63/0.69

-

0.64/0.71

Spleen

CT (41 Training + 20 Testing)

0.96

-

0.97

Colon

CT (41 Training + 20 Testing)

0.56

-

0.53

Only showing Dice Score.

Recent papers on Medical Segmentation Decathlon

Date

First Author

Title

Score

20190606

Zhuotun Zhu

V-NAS: Neural Architecture Search for Volumetric Medical Image Segmentation (arxiv)

Lung tumor: 55.27; Pancreas and tumor: 79.94, 37.78 (4-fold CV)

Past Challenges (New submission closed)

2018 MICCAI: Multimodal Brain Tumor Segmentation Challenge(BraTS)

Summary: Identifying the Best Machine Learning Algorithms for Brain Tumor Segmentation, Progression Assessment, and Overall Survival Prediction in the BRATS Challenge Spyridon Bakas et al. 201811, (arxiv)

Rank(18)

First Author

Title

Val. WT/EN/TC Dice

Test Val. WT/ET/TC Dice

1

Andriy Myronenko

3D MRI Brain Tumor Segmentation Using Autoencoder Regularization (paper)

0.91/0.823/0.867

0.884/0.766/0.815

2

No New-Net (paper)

0.913/0.809/0.863

0.878/0.779/0.806

3

Ensembles of Densely-Connected CNNs with Label-Uncertainty for Brain Tumor Segmentation (paper)

0.903/0.796/0.847

0.886/0.732/0.799

3

Chenhong Zhou

Learning Contextual and Attentive Information for Brain Tumor Segmentation (paper)

0.9095/0.8136/0.8651

0.8842/0.7775/0.7960

New

Task Decomposition and Synchronization for Semantic Biomedical Image Segmentation (paper)

0.915/0.832/0.883

-

2018 MICCAI: Ischemic stroke lesion segmentation (ISLES )

Date

First Author

Title

Dice

20190605

Yu Chen

OctopusNet: A Deep Learning Segmentation Network for Multi-modal Medical Images (paper)

57.90 (5-fold CV)

201812

Boundary loss for highly unbalanced segmentation (paper), (pytorch 1.0 code)

65.6

201809

Tao Song

3D Multi-scale U-Net with Atrous Convolution for Ischemic Stroke Lesion Segmentation, (paper)

55.86

201809

Pengbo Liu

Stroke Lesion Segmentation with 2D Convolutional Neutral Network and Novel Loss Function, (paper)

55.23

201809

Yu Chen

Ensembles of Modalities Fused Model for Ischemic Stroke Lesion Segmentation, (paper)

-

2018 MICCAI Grand Challenge on MR Brain Image Segmentation (MRBrainS18)

Eight Label Segmentation Results (201809)

Rank

First Author

Title

Score

1

Miguel Luna

3D Patchwise U-Net with Transition Layers for MR Brain Segmentation (paper)

9.971

2

Alireza Mehrtash

U-Net with various input combinations (paper)

9.915

3

Xuhua Ren

Ensembles of Multiple Scales, Losses and Models for Segmentation of Brain Area (paper)

9.872

201906

Brain MR Image Segmentation in Small Dataset with Adversarial Defense and Task Reorganization (arxiv )

5 fold CV Dice: 84.46

Three Label Segmentation Results (201809)

Rank

First Author

Title

GM/WM/CSF Dice

Score

1

Liyan Sun

Brain Tissue Segmentation Using 3D FCN with Multi-modality Spatial Attention (paper)

0.86/0.889/0.850

11.272

2018 MICCAI: Left Ventricle Full Quantification Challenge (LVQuan18)

Rank

First Author

Title

1

Jiahui Li

Left Ventricle Full Quantification Using Deep Layer Aggregation Based Multitask Relationship Learning, (paper)

2

Left-Ventricle Quantification Using Residual U-Net, (paper)

3

Cardiac MRI Left Ventricle Segmentation and Quantification: A Framework Combining U-Net and Continuous Max-Flow (paper)

2018 MICCAI: Atrial Segmentation Challenge (AtriaSeg)

Rank

First Author

Title

Score

1

Qing Xia

Automatic 3D Atrial Segmentation from GE-MRIs Using Volumetric Fully Convolutional Networks (paper)

0.932

2

Cheng Bian

Pyramid Network with Online Hard Example Mining for Accurate Left Atrium Segmentation (paper)

0.926

2

Dilated Convolutions in Neural Networks for Left Atrial Segmentation in 3D Gadolinium Enhanced-MR (paper)

0.926

Awesome Open Source Tools

Task

First Author

Title

Notes

Detection&Segmentation

Retina U-Net: Embarrassingly Simple Exploitation of Segmentation Supervision for Medical Object Detection, (paper), (code)

pytorch 0.4

Medical Image Analysis

NiftyNet: a deep-learning platform for medical imaging (paper), (code)

Tensorflow 1.12

awesome-semantic-segmentation

mrgloom

3000+ stars

Segmentation

300+stars

Loss functions for Segmentation (paper & code)

Contribute

Contributions are most welcome!