@book{Lamport:Book:1989,
 author = {Lamport, Leslie},
 title = {Latex: A Document Preparation System},
 year = {1986},
 isbn = {0-201-15790-X},
 publisher = {Addison-Wesley Longman Publishing Co., Inc.},
 address = {Boston, MA, USA},
}

%mil
@article{campanella2019clinical,
  title={Clinical-grade computational pathology using weakly supervised deep learning on whole slide images},
  author={Campanella, Gabriele and Hanna, Matthew G and Geneslaw, Luke and Miraflor, Allen and Silva, Vitor Werneck Krauss and Busam, Klaus J and Brogi, Edi and Reuter, Victor E and Klimstra, David S and Fuchs, Thomas J},
  journal={Nature medicine},
  volume={25},
  number={8},
  pages={1301--1309},
  year={2019},
  publisher={Nature Publishing Group}
}

@inproceedings{yao2019deep,
  title={Deep Multi-instance Learning for Survival Prediction from Whole Slide Images},
  author={Yao, Jiawen and Zhu, Xinliang and Huang, Junzhou},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={496--504},
  year={2019},
  organization={Springer}
}

@inproceedings{chen2019rectified,
  title={Rectified Cross-Entropy and Upper Transition Loss for Weakly Supervised Whole Slide Image Classifier},
  author={Chen, Hanbo and Han, Xiao and Fan, Xinjuan and Lou, Xiaoying and Liu, Hailing and Huang, Junzhou and Yao, Jianhua},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={351--359},
  year={2019},
  organization={Springer}
}

@article{xu2017parallel,
  title={Parallel multiple instance learning for extremely large histopathology image analysis},
  author={Xu, Yan and Li, Yeshu and Shen, Zhengyang and Wu, Ziwei and Gao, Teng and Fan, Yubo and Lai, Maode and Eric, I and Chang, Chao},
  journal={BMC bioinformatics},
  volume={18},
  number={1},
  pages={360},
  year={2017},
  publisher={BioMed Central}
}

@inproceedings{zhu2017deep,
  title={Deep multi-instance networks with sparse label assignment for whole mammogram classification},
  author={Zhu, Wentao and Lou, Qi and Vang, Yeeleng Scott and Xie, Xiaohui},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={603--611},
  year={2017},
  organization={Springer}
}

@inproceedings{hou2016patch,
  title={Patch-based convolutional neural network for whole slide tissue image classification},
  author={Hou, Le and Samaras, Dimitris and Kurc, Tahsin M and Gao, Yi and Davis, James E and Saltz, Joel H},
  booktitle={Proceedings of the IEEE conference on computer vision and pattern recognition},
  pages={2424--2433},
  year={2016}
}
@inproceedings{xu2014deep,
  title={Deep learning of feature representation with multiple instance learning for medical image analysis},
  author={Xu, Yan and Mo, Tao and Feng, Qiwei and Zhong, Peilin and Lai, Maode and Eric, I and Chang, Chao},
  booktitle={2014 IEEE international conference on acoustics, speech and signal processing (ICASSP)},
  pages={1626--1630},
  year={2014},
  organization={IEEE}
}
@article{xu2014weakly,
  title={Weakly supervised histopathology cancer image segmentation and classification},
  author={Xu, Yan and Zhu, Jun-Yan and Eric, I and Chang, Chao and Lai, Maode and Tu, Zhuowen},
  journal={Medical image analysis},
  volume={18},
  number={3},
  pages={591--604},
  year={2014},
  publisher={Elsevier}
}

@inproceedings{cosatto2013automated,
  title={Automated gastric cancer diagnosis on h\&e-stained sections; ltraining a classifier on a large scale with multiple instance machine learning},
  author={Cosatto, Eric and Laquerre, Pierre-Francois and Malon, Christopher and Graf, Hans-Peter and Saito, Akira and Kiyuna, Tomoharu and Marugame, Atsushi and Kamijo, Ken'ichi},
  booktitle={Medical Imaging 2013: Digital Pathology},
  volume={8676},
  pages={867605},
  year={2013},
  organization={International Society for Optics and Photonics}
}

@article{ilse2018attention,
  title={Attention-based deep multiple instance learning},
  author={Ilse, Maximilian and Tomczak, Jakub M and Welling, Max},
  journal={arXiv preprint arXiv:1802.04712},
  year={2018}
}

%cluster, unsupervised
@inproceedings{muhammad2019unsupervised,
  title={Unsupervised Subtyping of Cholangiocarcinoma Using a Deep Clustering Convolutional Autoencoder},
  author={Muhammad, Hassan and Sigel, Carlie S and Campanella, Gabriele and Boerner, Thomas and Pak, Linda M and B{\"u}ttner, Stefan and IJzermans, Jan NM and Koerkamp, Bas Groot and Doukas, Michael and Jarnagin, William R and others},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
  pages={604--612},
  year={2019},
  organization={Springer}
}

@inproceedings{vu2015dfdl,
  title={DFDL: Discriminative feature-oriented dictionary learning for histopathological image classification},
  author={Vu, Tiep H and Mousavi, Hojjat S and Monga, Vishal and Rao, UK Arvind and Rao, Ganesh},
  booktitle={2015 IEEE 12th International Symposium on Biomedical Imaging (ISBI)},
  pages={990--994},
  year={2015},
  organization={IEEE}
}

@inproceedings{zhu2017wsisa,
  title={Wsisa: Making survival prediction from whole slide histopathological images},
  author={Zhu, Xinliang and Yao, Jiawen and Zhu, Feiyun and Huang, Junzhou},
  booktitle={Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition},
  pages={7234--7242},
  year={2017}
}

@article{wang2019weakly,
  title={Weakly Supervised Deep Learning for Whole Slide Lung Cancer Image Analysis},
  author={Wang, Xi and Chen, Hao and Gan, Caixia and Lin, Huangjing and Dou, Qi and Tsougenis, Efstratios and Huang, Qitao and Cai, Muyan and Heng, Pheng-Ann},
  journal={IEEE transactions on cybernetics},
  year={2019},
  publisher={IEEE}
}


@article{tellez2019neural,
  title={Neural Image Compression for Gigapixel Histopathology Image Analysis},
  author={Tellez, David and Litjens, Geert and van der Laak, Jeroen and Ciompi, Francesco},
  journal={IEEE transactions on pattern analysis and machine intelligence},
  year={2019},
  publisher={IEEE}
}

%extra label
@inproceedings{li2018thoracic,
  title={Thoracic disease identification and localization with limited supervision},
  author={Li, Zhe and Wang, Chong and Han, Mei and Xue, Yuan and Wei, Wei and Li, Li-Jia and Fei-Fei, Li},
  booktitle={Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition},
  pages={8290--8299},
  year={2018}
}

@article{mousavi2015automated,
  title={Automated discrimination of lower and higher grade gliomas based on histopathological image analysis},
  author={Mousavi, Hojjat Seyed and Monga, Vishal and Rao, Ganesh and Rao, Arvind UK},
  journal={Journal of pathology informatics},
  volume={6},
  year={2015},
  publisher={Wolters Kluwer--Medknow Publications}
}

@inproceedings{cruz2014automatic,
  title={Automatic detection of invasive ductal carcinoma in whole slide images with convolutional neural networks},
  author={Cruz-Roa, Angel and Basavanhally, Ajay and Gonz{\'a}lez, Fabio and Gilmore, Hannah and Feldman, Michael and Ganesan, Shridar and Shih, Natalie and Tomaszewski, John and Madabhushi, Anant},
  booktitle={Medical Imaging 2014: Digital Pathology},
  volume={9041},
  pages={904103},
  year={2014},
  organization={International Society for Optics and Photonics}
}

%cnn
@inproceedings{Resnet,
  title={Deep residual learning for image recognition},
  author={He, Kaiming and Zhang, Xiangyu and Ren, Shaoqing and Sun, Jian},
  booktitle={Proceedings of the IEEE conference on computer vision and pattern recognition},
  pages={770--778},
  year={2016}
}

@article{pytorch,
  title={Automatic differentiation in PyTorch},
  author={Paszke, Adam and Gross, Sam and Chintala, Soumith and Chanan, Gregory and Yang, Edward and DeVito, Zachary and Lin, Zeming and Desmaison, Alban and Antiga, Luca and Lerer, Adam},
  year={2017}
}