在醫學圖像分析方向上深度學習論文清單

在醫學圖像分析方向上深度學習論文清單

背景

據我們所知，這是第一份關於醫學應用的深度學習論文清單。一般來說，有很多深度學習論文或計算機視覺的列表，例如Awesome Deep Learning Papers。在此列表中，我嘗試根據他們的深度學習技巧和學習方法對論文進行分類。我相信這份清單可能是一個很好的起點對於深度學習醫學應用研究人員而言。

上榜標準

1. 2015年以來公開發布的頂尖深度學習論文。
2. 來自具有同行評議的期刊和知名會議。也包括一些最近發表在 arXiv的論文。
3. 深度學習技術，成像模態，臨牀數據庫等元數據需要提供。

期刊會議列表

• 醫學圖像分析 (MedIA)
• IEEE 醫學圖像學報 (IEEE-TMI)
• IEEE 生物醫學工程學報(IEEE-TBME)
• IEEE 生物醫學與健康信息學雜誌 (IEEE-JBHI)
• 國際計算機輔助放射學和外科學雜誌 (IJCARS)
• 醫學影像信息處理國際會議 (IPMI)
• 醫學圖像計算與計算機輔助干預國際會議 (MICCAI)
• 計算機輔助干預信息處理國際會議 (IPCAI)
• IEEE國際生物醫學成像研討會 (ISBI)

名詞解釋

深度學習

• NN(Neural Networks):神經網絡
• MLP(Multilayer Perceptron): 多層感知機
• RBM(Restricted Boltzmann Machine): 受限玻爾茲曼機
• SAE(Stacked Auto-Encoders): 棧式自編碼器
• CAE(Convolutional Auto-Encoders): 卷積的自編碼器
• CNN(Convolutional Neural Networks): 卷積神經網絡
• RNN(Recurrent Neural Networks): 循環神經網絡
• LSTM(Long Short Term Memory): 長短期記憶神經網絡
• MS-CNN(Multi-Scale/View/Stream CNN): 多尺度卷積神經網絡
• MIL-CNN(Multi-instance Learning CNN): 多實例學習卷積神經網絡
• FCN(Fully Convolutional Networks):全卷積神經網絡

醫學名詞

• US(Ultrasound): 醫學超聲檢查
• MR/MRI(Magnetic Resonance Imaging): 核磁共振成像
• PET(Positron Emission Tomography): 正子斷層照影
• MG(Mammography): 乳房攝影術
• CT(Computed Tompgraphy): 計算機斷層掃描
• H&E(Hematoxylin & Eosin Histology Images): 蘇木精—伊紅染色法

目錄

深度學習

• 自編碼器/ 棧式自編碼器
• [卷積神經網絡]
  (#convolutional-neural-networks)
• 循環神經網絡
• 生成對抗網絡

醫學應用

• 註解
• 分類
• 檢測
• 分割
• Registration
• 迴歸
• 圖像重建
• 其他

文獻索引

研究類綜述

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
NN	H&E	無	Deep learning of feature representation with multiple instance learning for medical image analysis [pdf]		ICASSP	2014
M-CNN	H&E	乳腺	AggNet: Deep Learning From Crowds for Mitosis Detection in Breast Cancer Histology Images [pdf]	AMIDA	IEEE-TMI	2016
FCN	H&E	無	Suggestive Annotation: A Deep Active Learning Framework for Biomedical Image Segmentation pdf		MICCAI	2017

分類問題

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
M-CNN	CT	肺	Multi-scale Convolutional Neural Networks for Lung Nodule Classification [pdf]	LIDC-IDRI	IPMI	2015
3D-CNN	MRI	大腦	Predicting Alzheimer’s disease: a neuroimaging study with 3D convolutional neural networks [pdf]	ADNI	arXiv	2015
CNN+RNN	RGB	眼睛	Automatic Feature Learning to Grade Nuclear Cataracts Based on Deep Learning [pdf]		IEEE-TBME	2015
CNN	X-ray	膝蓋	Quantifying Radiographic Knee Osteoarthritis Severity using Deep Convolutional Neural Networks [pdf]	O.E.1	arXiv	2016
CNN	H&E	甲狀腺	A Deep Semantic Mobile Application for Thyroid Cytopathology [pdf]		SPIE	2016
3D-CNN, 3D-CAE	MRI	大腦	Alzheimer’s Disease Diagnostics by a Deeply Supervised Adaptable 3D Convolutional Network [pdf]	ADNI	arXiv	2016
M-CNN	RGB	皮膚	Multi-resolution-tract CNN with hybrid pretrained and skin-lesion trained layers [pdf]	Dermofit	MLMI	2016
CNN	RGB	皮膚,眼睛	Towards Automated Melanoma Screening: Exploring Transfer Learning Schemes [pdf]	EDRA, DRD	arXiv	2016
M-CNN	CT	肺	Pulmonary Nodule Detection in CT Images: False Positive Reduction Using Multi-View Convolutional Networks [pdf]	LIDC-IDRI, ANODE09, DLCST	IEEE-TMI	2016
3D-CNN	CT	肺	DeepLung: Deep 3D Dual Path Nets for Automated Pulmonary Nodule Detection and Classification [pdf]	LIDC-IDRI, LUNA16	IEEE-WACV	2018
3D-CNN	MRI	大腦	3D Deep Learning for Multi-modal Imaging-Guided Survival Time Prediction of Brain Tumor Patients [pdf]		MICCAI	2016
SAE	US, CT	乳腺,大腦	Computer-Aided Diagnosis with Deep Learning Architecture: Applications to Breast Lesions in US Images and Pulmonary Nodules in CT Scans [pdf]	LIDC-IDRI	Nature	2016
CAE	MG	乳腺	Unsupervised deep learning applied to breast density segmentation and mammographic risk scoring [pdf]		IEEE-TMI	2016
MIL-CNN	MG	乳腺	Deep multi-instance networks with sparse label assignment for whole mammogram classification [pdf]	INbreast	MICCAI	2017
GCN	MRI	大腦	Spectral Graph Convolutions for Population-based Disease Prediction [pdf]	ADNI, ABIDE	arXiv	2017
CNN	RGB	皮膚	Dermatologist-level classification of skin cancer with deep neural networks		Nature	2017
FCN + CNN	MRI	肝，肝癌	SurvivalNet: Predicting patient survival from diffusion weighted magnetic resonance images using cascaded fully convolutional and 3D convolutional neural networks [pdf]		ISBI	2017

檢測問題

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
MLP	CT	頭頸	3D Deep Learning for Efficient and Robust Landmark Detection in Volumetric Data [pdf]		MICCAI	2015
CNN	US	胎兒	Standard Plane Localization in Fetal Ultrasound via Domain Transferred Deep Neural Networks [pdf]		IEEE-JBHI	2015
2.5D-CNN	MRI	股骨	Automated anatomical landmark detection ondistal femur surface using convolutional neural network [pdf]	OAI	ISBI	2015
LSTM	US	胎兒	Automatic Fetal Ultrasound Standard Plane Detection Using Knowledge Transferred Recurrent Neural Networks [pdf]		MICCAI	2015
CNN	X-ray, MRI	頭部	Regressing Heatmaps for Multiple Landmark Localization using CNNs [pdf]	DHADS	MICCAI	2016
CNN	MRI, US, CT	-	An artificial agent for anatomical landmark detection in medical images [pdf]	SATCOM	MICCAI	2016
FCN	US	胎兒	Real-time Standard Scan Plane Detection and Localisation in Fetal Ultrasound using Fully Convolutional Neural Networks [pdf]		MICCAI	2016
CNN+LSTM	MRI	心臟	Recognizing end-diastole and end-systole frames via deep temporal regression network [pdf]		MICCAI	2016
M-CNN	MRI	心臟	Improving Computer-Aided Detection Using Convolutional Neural Networks and Random View Aggregation Neural Networks [pdf]		IEEE-TMI	2016
CNN	PET/CT	心臟	Automated detection of pulmonary nodules in PET/CT images: Ensemble false-positive reduction using a convolutional neural network technique Neural Networks [pdf]		MP	2016
3D-CNN	MRI	大腦	Automatic Detection of Cerebral Microbleeds From MR Images via 3D Convolutional Neural Networks [pdf]		IEEE-TMI	2016
CNN	X-ray, MG	-	Self-Transfer Learning for Fully Weakly Supervised Lesion Localization [pdf]	NIH,China, DDSM,MIAS	MICCAI	2016
CNN	RGB	眼睛	Fast Convolutional Neural Network Training Using Selective Data Sampling: Application to Hemorrhage Detection in Color Fundus Images [pdf]	DRD, MESSIDOR	MICCAI	2016
GAN	-	-	Unsupervised Anomaly Detection with Generative Adversarial Networks to Guide Marker Discovery		IPMI	2017
FCN	X-ray	心臟	CathNets: Detection and Single-View Depth Prediction of Catheter Electrodes		MIAR	2016
3D-CNN	CT	肺	DeepLung: Deep 3D Dual Path Nets for Automated Pulmonary Nodule Detection and Classification [pdf]	LIDC-IDRI, LUNA16	IEEE-WACV	2018
3D-CNN	CT	肺	DeepEM: Deep 3D ConvNets with EM for weakly supervised pulmonary nodule detection [pdf]	LIDC-IDRI, LUNA16	MICCAI	2018

分割問題

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
U-Net	-	-	U-net: Convolutional networks for biomedical image segmentation		MICCAI	2015
FCN	MRI	頭頸	Efficient multi-scale 3D CNN with fully connected CRF for accurate brain lesion segmentation [pdf]		arXiv	2016
FCN	CT	肝，肝癌	Automatic Liver and Lesion Segmentation in CT Using Cascaded Fully Convolutional Neural Networks and 3D Conditional Random Fields [pdf]		MICCAI	2016
3D-CNN	MRI	脊柱	Model-Based Segmentation of Vertebral Bodies from MR Images with 3D CNNs		MICCAI	2016
FCN	CT	肝，肝癌	Automatic Liver and Tumor Segmentation of CT and MRI Volumes using Cascaded Fully Convolutional Neural Networks [pdf]		arXiv	2017
FCN	MRI	肝，肝癌	SurvivalNet: Predicting patient survival from diffusion weighted magnetic resonance images using cascaded fully convolutional and 3D convolutional neural networks [pdf]		ISBI	2017
3D-CNN	Diffusion MRI	大腦	q-Space Deep Learning: Twelve-Fold Shorter and Model-Free Diffusion MRI [pdf] (Section II.B.2)		IEEE-TMI	2016
GAN	MG	心肌	Adversarial Deep Structured Nets for Mass Segmentation from Mammograms [pdf]	INbreast, DDSM-BCRP	ISBI	2018
3D-CNN	CT	肝臟	3D Deeply Supervised Network for Automatic Liver Segmentation from CT Volumes pdf		MICCAI	2017
3D-CNN	MRI	大腦	Unsupervised domain adaptation in brain lesion segmentation with adversarial networks pdf		IPMI	2017
FCN	FUNDUS	眼睛/視網膜	A Fully Convolutional Neural Network based Structured Prediction Approach Towards the Retinal Vessel Segmentation pdf		ISBI	2017

正則化

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
3D-CNN	CT	脊柱	An Artificial Agent for Robust Image Registration [pdf]			2016

迴歸

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
2.5D-CNN	MRI		Automated anatomical landmark detection ondistal femur surface using convolutional neural network [pdf]	OAI	ISBI	2015
3D-CNN	Diffusion MRI	大腦	q-Space Deep Learning: Twelve-Fold Shorter and Model-Free Diffusion MRI [pdf] (Section II.B.1)	[HCP] and other	IEEE-TMI	2016

圖像重建

計算機技術	醫學技術	目標區域	標題	數據庫	J/C	年份
CNN	CS-MRI		A Deep Cascade of Convolutional Neural Networks for Dynamic MR Image Reconstruction pdf		IEEE-TMI	2017
GAN	CS-MRI		Deep Generative Adversarial Networks for Compressed Sensing Automates MRI pdf		NIPS	2017