%% This BibTeX bibliography file was created using BibDesk.
%% https://bibdesk.sourceforge.io/

%% Created for Roger David Soberanis Mukul at 2020-01-29 3:43:57 PM +0100 


%% Saved with string encoding Unicode (UTF-8) 
@article{oktay2017anatomically,
  title={Anatomically constrained neural networks (ACNNs): application to cardiac image enhancement and segmentation},
  author={Oktay, Ozan and Ferrante, Enzo and Kamnitsas, Konstantinos and Heinrich, Mattias and Bai, Wenjia and Caballero, Jose and Cook, Stuart A and De Marvao, Antonio and Dawes, Timothy and O‘Regan, Declan P and others},
  journal={IEEE transactions on medical imaging},
  volume={37},
  number={2},
  pages={384--395},
  year={2017},
  publisher={IEEE}
}

@article{tomczack2019learn,
  title={Learn to estimate labels uncertainty for quality assurance},
  author={Tomczack, Agnieszka and Navab, Nassir and Albarqouni, Shadi},
  journal={arXiv preprint arXiv:1909.08058},
  year={2019}
}

@inproceedings{degel2018domain,
  title={Domain and geometry agnostic CNNs for left atrium segmentation in 3D ultrasound},
  author={Degel, Markus A and Navab, Nassir and Albarqouni, Shadi},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={630--637},
  year={2018},
  organization={Springer}
}

@unpublished{bib:Xia18,
	Author = {Yingda Xia and Fengze Liu and Dong Yang and Jinzheng Cai and Lequan Yu and Zhuotun Zhu and Daguang Xu and Alan Yuille and Holger Roth},
	Date-Added = {2020-01-29 3:38:07 PM +0100},
	Date-Modified = {2020-01-29 3:42:22 PM +0100},
	Note = {arXiv:1811.12506},
	year={2018},
	Title = {3D Semi-Supervised Learning with Uncertainty-Aware Multi-View Co-Training}}

@unpublished{bib:simpson19,
	Author = {Amber L. Simpson and Michela Antonelli and Spyridon Bakas and Michel Bilello and Keyvan Farahani and Bram van Ginneken and Annette Kopp-Schneider and Bennett A. Landman and Geert Litjens and Bjoern Menze and Olaf Ronneberger and Ronald M. Summers and Patrick Bilic and Patrick F. Christ and Richard K. G. Do and Marc Gollub and Jennifer Golia-Pernicka and Stephan H. Heckers and William R. Jarnagin and Maureen K. McHugo and Sandy Napel and Eugene Vorontsov and Lena Maier-Hein and M. Jorge Cardoso},
	Date-Added = {2020-01-29 3:31:37 PM +0100},
	Date-Modified = {2020-01-29 3:35:34 PM +0100},
	Note = {arXiv:1902.09063},
	year={2019},
	Title = {A large annotated medical image dataset for the development and evaluation of segmentation algorithms}}

@article{bib:Clark13,
	Author = {Kenneth Clark and Bruce Vendt and Kirk Smith and John Freymann and Justin Kirby and Paul Koppel and Stephen Moore and Stanley Phillips and David Maffitt and Michael Pringle and Lawrence Tarbox and Fred Prior},
	Date-Added = {2020-01-29 3:28:02 PM +0100},
	Date-Modified = {2020-01-29 3:31:26 PM +0100},
	Journal = {Journal of Digital Imaging},
	Title = {The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository},
	Year = {2013}}

@conference{bib:Roth15,
	Author = {Holger R. Roth and Le Lu and Amal Farag and Hoo-Chang Shin and Jiamin Liu and Evrim Turkbey and Ronald M. Summers},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:25:27 PM +0100},
	Date-Modified = {2020-01-29 3:27:48 PM +0100},
	Title = {DeepOrgan: Multi-level Deep Convolutional Networks for Automated Pancreas Segmentation},
	Year = {2015}}

@unpublished{bib:Roth16,
	Author = {Holger R. Roth and Amal Farag and Evrim B. Turkbey and Le Lu and Jiamin Liu and Ronald M. Summers},
	Date-Added = {2020-01-29 3:22:20 PM +0100},
	Date-Modified = {2020-01-29 3:25:12 PM +0100},
	Note = {http://doi.org/10.7937/K9/TCIA.2016.tNB1kqBU},
	Title = {Data From Pancreas-CT. The Cancer Imaging Archive},
	Year = {2016}}

@conference{bib:Zhouz17,
	Author = {Zongwei Zhou and Jae Shin and Lei Zhang and Suryakanth Gurudu and Michael Gotway and Jianming Liang},
	Booktitle = {2017 IEEE Conference on Computer Vision and Pattern Recognition (CVPR)},
	Date-Added = {2020-01-29 3:20:39 PM +0100},
	Date-Modified = {2020-01-29 3:21:59 PM +0100},
	Title = {Fine-tuning Convolutional Neural Networks for Biomedical Image Analysis: Actively and Incrementally},
	Year = {2017}}

@conference{bib:Kipf17,
	Author = {Thomas N. Kipf and Max Welling},
	Booktitle = {International Conference on Learning Representations (ICLR)},
	Date-Added = {2020-01-29 3:19:29 PM +0100},
	Date-Modified = {2020-01-29 3:20:26 PM +0100},
	Title = {Semi-Supervised Classification with Graph Convolutional Networks},
	Year = {2017}}

@conference{bib:Ronneberger15,
	Author = {Olaf Ronneberger and Philipp Fischer and Thomas Brox},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:18:16 PM +0100},
	Date-Modified = {2020-01-29 3:19:13 PM +0100},
	Title = {U-Net: Convolutional Networks for Biomedical Image Segmentation},
	Year = {2015}}

@conference{bib:Yu19,
	Author = {Lequan Yu and Shujun Wang and Xiaomeng Li and Chi-Wing Fu and Pheng-Ann Heng},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:16:27 PM +0100},
	Date-Modified = {2020-01-29 3:17:44 PM +0100},
	Title = {Uncertainty-aware Self-ensembling Model for Semi-supervised 3D Left Atrium Segmentation},
	Year = {2019}}

@conference{bib:Nair18,
	Author = {Tanya Nair and Doina Precup and Douglas L. Arnold and Tal Arbel},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:15:18 PM +0100},
	Date-Modified = {2020-01-29 3:16:22 PM +0100},
	Title = {Exploring Uncertainty Measures in Deep Networks for Multiple Sclerosis Lesion Detection and Segmentation},
	Year = {2018}}

@conference{bib:Roy18,
	Author = {Abhijit Guha Roy and Sailesh Conjeti and Nassir Navab and Christian Wachinger},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:14:03 PM +0100},
	Date-Modified = {2020-01-29 3:38:05 PM +0100},
	Title = {Inherent Brain Segmentation Quality Control from Fully ConvNet Monte Carlo Sampling},
	Year = {2018}}

@conference{bib:Bai17,
	Author = {Wenjia Bai and Ozan Oktay and Matthew Sinclair and Hideaki Suzuki and Martin Rajchl and Giacomo Tarroni and Ben Glocker and Andrew King and Paul M. Matthews and Daniel Rueckert},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:11:57 PM +0100},
	Date-Modified = {2020-01-29 3:13:48 PM +0100},
	Title = {Semi-supervised Learning for Network-Based Cardiac MR Image Segmentation},
	Year = {2017}}

@conference{bib:Dias18,
	Author = {Philipe Ambrozio Dias and Henry Medeiros},
	Booktitle = {Asian Conference on Computer Vision (ACCV)},
	Date-Added = {2020-01-29 3:09:48 PM +0100},
	Date-Modified = {2020-01-29 3:10:47 PM +0100},
	Title = {Semantic Segmentation Refinement by Monte Carlo Region Growing of High Confidence Detections},
	Year = {2019}}

@inproceedings{bib:Kendall17,
	Author = {Alex Kendall and Yarin Gal},
	Booktitle = {Proceedings of the 31th International Conference on Neural Information Processing Systems (NIPS)},
	Date-Added = {2020-01-29 3:08:31 PM +0100},
	Date-Modified = {2020-01-29 3:09:34 PM +0100},
	Title = {What Uncertainties Do We Need in Bayesian Deep Learning for Computer Vision?},
	Year = {2017}}

@conference{bib:Yu17,
	Author = {Lequan Yu and Jie-Zhi Cheng and Qi Dou and Xin Yang and Hao Chen and Jing Qin and Pheng-Ann Heng},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 3:07:01 PM +0100},
	Date-Modified = {2020-01-29 3:08:14 PM +0100},
	Title = {Automatic 3D Cardiovascular MR Segmentation with Densely-Connected Volumetric ConvNets},
	Year = {2017}}

@article{bib:Wang18,
	Author = {Guotai Wang and Wenqi Li and Zuluaga, {Maria A.} and Rosalind Pratt and Patel, {Premal A.} and Michael Aertsen and Tom Doel and Anna L. David and Jan Deprest and Sebastien Ourselin and Tom Vercauteren},
	Date-Added = {2020-01-29 3:03:00 PM +0100},
	Date-Modified = {2020-01-29 3:06:43 PM +0100},
	Journal = {IEEE Transactions on Medical Imaging},
	Title = {Interactive Medical Image Segmentation Using Deep Learning With Image-Specific Fine Tuning},
	Year = {2018}}

@conference{bib:Roth18,
	Author = {Holger Roth and Masahiro Oda and Natsuki Shimizu and Hirohisa Oda and Yuichiro Hayashi and Takayuki Kitasaka and Michitaka Fujiwara and Kazunari Misawa and Kensaku Mori},
	Booktitle = {SPIE Medical Imaging 2018},
	Date-Added = {2020-01-29 3:00:00 PM +0100},
	Date-Modified = {2020-01-29 3:02:29 PM +0100},
	Title = {Towards dense volumetric pancreas segmentation in CT using 3D fully convolutional networks},
	Year = {2018}}

@conference{bib:Zhu17,
	Author = {Zhuotun Zhu and Yingda Xia and Wei Shen and Elliot K. Fishman and Alan L. Yuille},
	Booktitle = {2018 International Conference on 3D Vision (3DV)},
	Date-Added = {2020-01-29 2:58:26 PM +0100},
	Date-Modified = {2020-01-29 2:59:49 PM +0100},
	Title = {A 3D Coarse-to-Fine Framework for Volumetric Medical Image Segmentation},
	Year = {2018}}

@article{bib:Roth17,
	Author = {Holger R. Roth and Le Lu and Nathan Lay and Adam P. Harrison and Amal Farag and Andrew Sohn and Ronald M. Summers},
	Date-Added = {2020-01-29 2:56:28 PM +0100},
	Date-Modified = {2020-01-29 2:58:00 PM +0100},
	Journal = {Medical Image Analysis},
	Title = {Spatial Aggregation of Holistically-Nested Convolutional Neural Networks for Automated Pancreas Localization and Segmentation},
	Year = {2018}}

@inproceedings{bib:Zhou17,
	Author = {Yuyin Zhou and Lingxi Xie and Wei Shen and Yan Wang and Elliot K. Fishman and Alan L. Yuille},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Date-Added = {2020-01-29 2:53:11 PM +0100},
	Date-Modified = {2020-01-29 2:54:45 PM +0100},
	Title = {A Fixed-Point Model for Pancreas Segmentation in Abdominal CT Scans},
	Year = {2017}}

@inproceedings{bib:Krahenbuhl11,
	Author = {Philip Kr{\"a}henb{\"u}hl and Vladlen Koltun},
	Booktitle = {Proceedings of the 24th International Conference on Neural Information Processing Systems (NIPS)},
	Date-Added = {2020-01-29 2:43:11 PM +0100},
	Date-Modified = {2020-01-29 2:52:58 PM +0100},
	Title = {Efficient inference in fully connected CRFs with Gaussian edge potentials},
	Year = {2011}}

@article{bib:Kamnitsas16,
	Author = {Konstantinos Kamnitsas and Christian Ledig and Virginia F.J. Newcombe and Joanna P. Simpson and Andrew D. Kane and David K. Menon and Daniel Rueckert and Ben Glocker},
	Date-Added = {2020-01-28 5:49:16 PM +0100},
	Date-Modified = {2020-01-29 2:42:09 PM +0100},
	Journal = {Medical Image Analysis},
	Title = {Efficient multi-scale 3D CNN with fully connected CRF for accurate brain lesion segmentation},
	Year = {2017}}

@article{bib:yuyin19,
  title={Prior-Aware Neural Network for Partially-Supervised Multi-Organ Segmentation},
  author={Yuyin Zhou and Zhe Li and Song Bai and Chong Wang and Xinlei Chen and Mei Han and Elliot K. Fishman and Alan L. Yuille},
  journal={2019 IEEE/CVF International Conference on Computer Vision (ICCV)},
  year={2019},
  pages={10671-10680}
}

@conference{bib:yao19,
	Author = {Jiawen Yao and Jinzheng Cai and Dong Yang and Daguang Xu and Junzhou Huang},
	Booktitle = {Medical Image Computing and Computer Assisted Intervention (MICCAI)},
	Title = {Integrating 3D Geometry of Organ for Improving Medical Image Segmentation},
	Year = {2019}}
	
@unpublished{bib:LaBonte19,
	Author = {Tyler LaBonte and Carianne Martinez and Scott Roberts},
	Note = {arXiv:1910.10793},
	year = {2019},
	Title = {We Know Where We Don't Know: 3D Bayesian CNNs for Uncertainty Quantification of Binary Segmentations for Material Simulations}}
	
@article{bib:Wang19,
  title={Abdominal multi-organ segmentation with organ-attention networks and statistical fusion},
  author={Yan Wang and Yuyin Zhou and Wei Shen and Seyoun Park and Elliot K. Fishman and Alan L. Yuille},
  journal={Medical image analysis},
  year={2019},
  volume={55}}