MICCAI 2020 Open Source Papers

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Part I, LNCS Volume 12261: Machine Learning Methodologies

Title	First Author	PDF	Code
Are Fast Labeling Methods Reliable? A Case Study of Computer-Aided Expert Annotations on Microscopy Slides	Christian Marzahl	LNCS	Code
BiO-Net: Learning Recurrent Bi-directional Connections for Encoder-Decoder Architecture	Tiange Xiang	LNCS	Code
Learning Semantics-Enriched Representation via Self-discovery, Self-classification, and Self-restoration	Fatemeh Haghighi	LNCS	Code
NAS-SCAM: Neural Architecture Search-Based Spatial and Channel Joint Attention Module for Nuclei Semantic Segmentation and Classification	Zuhao Liu	LNCS	Code
Encoding Visual Attributes in Capsules for Explainable Medical Diagnoses	Rodney LaLonde	LNCS	Code
Interpretability-Guided Content-Based Medical Image Retrieval	Wilson Silva	LNCS	Code
Comparing to Learn: Surpassing ImageNet Pretraining on Radiographs by Comparing Image Representations	Hong-Yu Zhou	LNCS	Code
Scribble-Based Domain Adaptation via Co-segmentation	Reuben Dorent	LNCS	Code
Source-Relaxed Domain Adaptation for Image Segmentation	Mathilde Bateson	LNCS	Code
Region-of-Interest Guided Supervoxel Inpainting for Self-supervision	Subhradeep Kayal	LNCS	Code
Harnessing Uncertainty in Domain Adaptation for MRI Prostate Lesion Segmentation	Eleni Chiou	LNCS	Code
Deep Semi-supervised Knowledge Distillation for Overlapping Cervical Cell Instance Segmentation	Yanning Zhou	LNCS	Code
Shape-Aware Semi-supervised 3D Semantic Segmentation for Medical Images	Shuailin Li	LNCS	Code
Self-supervised Depth Estimation to Regularise Semantic Segmentation in Knee Arthroscopy	Fengbei Liu	LNCS	Code
Semi-supervised Medical Image Classification with Global Latent Mixing	Prashnna Kumar Gyawali	LNCS	Code
Efficient Shapley Explanation for Features Importance Estimation Under Uncertainty	Xiaoxiao Li	LNCS	Code

Part II, LNCS Volume 12262: Image Reconstruction and Machine Learning

Title	First Author	PDF	Code
Compressive MR Fingerprinting Reconstruction with Neural Proximal Gradient Iterations	Dongdong Chen	LNCS	Code
BiO-Net: Learning Recurrent Bi-directional Connections for Encoder-Decoder Architecture	Tiange Xiang	LNCS	Code
3d-SMRnet: Achieving a New Quality of MPI System Matrix Recovery by Deep Learning	Ivo M. Baltruschat	LNCS	Code
Learned Proximal Networks for Quantitative Susceptibility Mapping	Kuo-Wei Lai	LNCS	Code
Geodesically Smoothed Tensor Features for Pulmonary Hypertension Prognosis Using the Heart and Surrounding Tissues	Johanna Uthoff	LNCS	Code
Unlearning Scanner Bias for MRI Harmonisation	Nicola K. Dinsdale	LNCS	Code
Self-supervised Skull Reconstruction in Brain CT Images with Decompressive Craniectomy	Franco Matzkin	LNCS	Code
Shape-Aware Meta-learning for Generalizing Prostate MRI Segmentation to Unseen Domains	Quande Liu	LNCS	Code
Joint Modeling of Chest Radiographs and Radiology Reports for Pulmonary Edema Assessment	Geeticka Chauhan	LNCS	Code
Large-Scale Inference of Liver Fat with Neural Networks on UK Biobank Body MRI	Taro Langner	LNCS	Code
Interpretation of Disease Evidence for Medical Images Using Adversarial Deformation Fields	Ricardo Bigolin Lanfredi	LNCS	Code

Part III, LNCS Volume 12263: Computer Aided Intervention, Ultrasound and Image Registration

Title	First Author	PDF	Code
Reconstructing Sinus Anatomy from Endoscopic Video – Towards a Radiation-Free Approach for Quantitative Longitudinal Assessment	Xingtong Liu	LNCS	Code
Simulation of Brain Resection for Cavity Segmentation Using Self-supervised and Semi-supervised Learning	Fernando Pérez-Garcı́a	LNCS	Code
MvMM-RegNet: A New Image Registration Framework Based on Multivariate Mixture Model and Neural Network Estimation	Xinzhe Luo	LNCS	Code
Highly Accurate and Memory Efficient Unsupervised Learning-Based Discrete CT Registration Using 2.5D Displacement Search	Mattias P. Heinrich	LNCS	Code
Generalizing Spatial Transformers to Projective Geometry with Applications to 2D/3D Registration	Cong Gao	LNCS	Code
TeCNO: Surgical Phase Recognition with Multi-stage Temporal Convolutional Networks	Tobias Czempiel	LNCS	Code
AutoSNAP: Automatically Learning Neural Architectures for Instrument Pose Estimation	David Kugler	LNCS	Code
Sensorless Freehand 3D Ultrasound Reconstruction via Deep Contextual Learning	Hengtao Guo	LNCS	Code
ISINet: An Instance-Based Approach for Surgical Instrument Segmentation	Cristina Gonza'lez	LNCS	Code
Vision-Based Estimation of MDS-UPDRS Gait Scores for Assessing Parkinson’s Disease Motor Severity	Mandy Lu	LNCS	Code
Towards Accurate and Interpretable Surgical Skill Assessment: A Video-Based Method Incorporating Recognized Surgical Gestures and Skill Levels	Tianyu Wang	LNCS	Code
Learning Motion Flows for Semi-supervised Instrument Segmentation from Robotic Surgical Video	Zixu Zhao	LNCS	Code
Rethinking Anticipation Tasks: Uncertainty-Aware Anticipation of Sparse Surgical Instrument Usage for Context-Aware Assistance	Dominik Rivoir	LNCS	Code

Part IV, LNCS Volume 12264: Segmentation and Shape Analysis

Title	First Author	PDF	Code
DeScarGAN: Disease-Specific Anomaly Detection with Weak Supervision	Julia Wolleb	LNCS	Code
Learning Directional Feature Maps for Cardiac MRI Segmentation	Feng Cheng	LNCS	Code
Uncertainty-Guided Efficient Interactive Refinement of Fetal Brain Segmentation from Stacks of MRI Slices	Guotai Wang	LNCS	Code
Defending Deep Learning-Based Biomedical Image Segmentation from Adversarial Attacks: A Low-Cost Frequency Refinement Approach	Qi Liu	LNCS	Code
Asymmetrical Multi-task Attention U-Net for the Segmentation of Prostate Bed in CT Image	Xuanang Xu	LNCS	Code
Generation of Annotated Brain Tumor MRIs with Tumor-induced Tissue Deformations for Training and Assessment of Neural Networks	Hristina Uzunova	LNCS	Code
AlignShift: Bridging the Gap of Imaging Thickness in 3D Anisotropic Volumes	Jiancheng Yang	LNCS	Code
Automated Detection of Cortical Lesions in Multiple Sclerosis Patients with 7T MRI	Francesco La Rosa	LNCS	Code
Miss the Point: Targeted Adversarial Attack on Multiple Landmark Detection	Qingsong Yao	LNCS	Code
Non-Rigid Volume to Surface Registration Using a Data-Driven Biomechanical Model	Micha Pfeiffer	LNCS	Code
A Kernelized Multi-level Localization Method for Flexible Shape Modeling with Few Training Data	Matthias Wilms	LNCS	Code

Part V, LNCS Volume 12265: Biological, Optical and Microscopic Image Analysis

Title	First Author	PDF	Code
Demixing Calcium Imaging Data in C. elegans via Deformable Non-negative Matrix Factorization	Amin Nejatbakhsh	LNCS	Code
MitoEM Dataset: Large-Scale 3D Mitochondria Instance Segmentation from EM Images	Donglai Wei	LNCS	Code
Microtubule Tracking in Electron Microscopy Volumes	Nils Eckstein	LNCS	Code
Statistical Atlas of C. elegans Neurons	Erdem Varol	LNCS	Code
Probabilistic Joint Segmentation and Labeling of C. elegans Neurons	Amin Nejatbakhsh	LNCS	Code
Joint Spatial-Wavelet Dual-Stream Network for Super-Resolution	Zhen Chen	LNCS	Code
Towards Neuron Segmentation from Macaque Brain Images: A Weakly Supervised Approach	Meng Dong	LNCS	Code
3D Reconstruction and Segmentation of Dissection Photographs for MRI-Free Neuropathology	Henry F. J. Tregidgo	LNCS	Code
Boundary-Assisted Region Proposal Networks for Nucleus Segmentation	Shengcong Chen	LNCS	Code
Weakly-Supervised Nucleus Segmentation Based on Point Annotations: A Coarse-to-Fine Self-Stimulated Learning Strategy	Kuan Tian	LNCS	Code
Self-supervised Nuclei Segmentation in Histopathological Images Using Attention	Mihir Sahasrabudhe	LNCS	Code
Renal Cell Carcinoma Detection and Subtyping with Minimal Point-Based Annotation in Whole-Slide Images	Zeyu Gao	LNCS	Code
Tracing Diagnosis Paths on Histopathology WSIs for Diagnostically Relevant Case Recommendation	Yushan Zheng	LNCS	Code
Weakly Supervised Multiple Instance Learning Histopathological Tumor Segmentation	Marvin Lerousseau	LNCS	Code
Divide-and-Rule: Self-Supervised Learning for Survival Analysis in Colorectal Cancer	Christian Abbet	LNCS	Code
Foveation for Segmentation of Mega-Pixel Histology Images	Chen Jin	LNCS	Code
Anterior Segment Eye Lesion Segmentation with Advanced Fusion Strategies and Auxiliary Tasks	Ke Wang	LNCS	Code

Part VI, LNCS Volume 12266: Clinical Applications

Title	First Author	PDF	Code
Branch-Aware Double DQN for Centerline Extraction in Coronary CT Angiography	Yuyang Zhang	LNCS	Code
Automated Intracranial Artery Labeling Using a Graph Neural Network and Hierarchical Refinement	Li Chen	LNCS	Code
Adaptive Context Selection for Polyp Segmentation	Ruifei Zhang	LNCS	Code
Data-Driven Multi-contrast Spectral Microstructure Imaging with InSpect	Paddy J. Slator	LNCS	Code
Region Proposals for Saliency Map Refinement for Weakly-Supervised Disease Localisation and Classification	Renato Hermoza	LNCS	Code
Class-Aware Multi-window Adversarial Lung Nodule Synthesis Conditioned on Semantic Features	Qiuli Wang	LNCS	Code
SIMBA: Specific Identity Markers for Bone Age Assessment	Cristina Gonz´ alez	LNCS	Code
Time Matters: Handling Spatio-Temporal Perfusion Information for Automated TICI Scoring	Maximilian Nielsen	LNCS	Code
Decoupling Inherent Risk and Early Cancer Signs in Image-Based Breast Cancer Risk Models	Yue Liu	LNCS	Code
PraNet: Parallel Reverse Attention Network for Polyp Segmentation	Deng-Ping Fan	LNCS	Code
Few-Shot Anomaly Detection for Polyp Frames from Colonoscopy	Yu Tian	LNCS	Code
Keypoints Localization for Joint Vertebra Detection and Fracture Severity Quantification	Maxim Pisov	LNCS	Code
Generative Modelling of 3D In-Silico Spongiosa with Controllable Micro-structural Parameters	Emmanuel Iarussi	LNCS	Code

Part VII, LNCS Volume 12267: Neurological Imaging and PET

Title	First Author	PDF	Code
From Connectomic to Task-Evoked Fingerprints: Individualized Prediction of Task Contrasts from Resting-State Functional Connectivity	Gia H. Ngo	LNCS	Code
Deep Graph Normalizer: A Geometric Deep Learning Approach for Estimating Connectional Brain Templates	Mustafa Burak Gurbuz	LNCS	Code
Supervised Multi-topology Network Cross-Diffusion for Population-Driven Brain Network Atlas Estimation	Islem Mhiri	LNCS	Code
Partial Volume Segmentation of Brain MRI Scans of Any Resolution and Contrast	Benjamin Billot	LNCS	Code
Context-Aware Refinement Network Incorporating Structural Connectivity Prior for Brain Midline Delineation	Shen Wang	LNCS	Code
White Matter Tract Segmentation with Self-supervised Learning	Qi Lu	LNCS	Code
Tractogram Filtering of Anatomically Non-plausible Fibers with Geometric Deep Learning	Pietro Astolfi	LNCS	Code
TRAKO: Efficient Transmission of Tractography Data for Visualization	Daniel Haehn	LNCS	Code
Whole MILC: Generalizing Learned Dynamics Across Tasks, Datasets, and Populations	Usman Mahmood	LNCS	Code
A Deep Pattern Recognition Approach for Inferring Respiratory Volume Fluctuations from fMRI Data	Roza G. Bayrak	LNCS	Code
Spatio-Temporal Graph Convolution for Resting-State fMRI Analysis	Soham Gadgil	LNCS	Code
A Shared Neural Encoding Model for the Prediction of Subject-Specific fMRI Response	Meenakshi Khosla	LNCS	Code
Topology-Aware Generative Adversarial Network for Joint Prediction of Multiple Brain Graphs from a Single Brain Graph	Alaa Bessadok	LNCS	Code
Topology-Aware Generative Adversarial Network for Joint Prediction of Multiple Brain Graphs from a Single Brain Graph	Alaa Bessadok	LNCS	Code
Patch-Based Abnormality Maps for Improved Deep Learning-Based Classification of Huntington’s Disease	Kilian Hett	LNCS	Code
Modelling the Distribution of 3D Brain MRI Using a 2D Slice VAE	Anna Volokitin	LNCS	Code
Image-Level Harmonization of Multi-site Data Using Image-and-Spatial Transformer Networks	Robert Robinson	LNCS	Code