References#
This section provides references to third-party libraries or models used in LazySlide. If you use these libraries or models, please cite them properly in your work.
Xiyue Wang, Junhan Zhao, Eliana Marostica, Wei Yuan, Jietian Jin, Jiayu Zhang, Ruijiang Li, Hongping Tang, Kanran Wang, Yu Li, Fang Wang, Yulong Peng, Junyou Zhu, Jing Zhang, Christopher R Jackson, Jun Zhang, Deborah Dillon, Nancy U Lin, Lynette Sholl, Thomas Denize, David Meredith, Keith L Ligon, Sabina Signoretti, Shuji Ogino, Jeffrey A Golden, Maclean P Nasrallah, Xiao Han, Sen Yang, and Kun-Hsing Yu. A pathology foundation model for cancer diagnosis and prognosis prediction. Nature, 634(8035):970–978, 4 October 2024. URL: http://dx.doi.org/10.1038/s41586-024-07894-z, doi:10.1038/s41586-024-07894-z.
Xiyue Wang, Sen Yang, Jun Zhang, Minghui Wang, Jing Zhang, Wei Yang, Junzhou Huang, and Xiao Han. Transformer-based unsupervised contrastive learning for histopathological image classification. Med. Image Anal., 81(102559):102559, 1 October 2022. URL: http://dx.doi.org/10.1016/j.media.2022.102559, doi:10.1016/j.media.2022.102559.
Jiabo Ma, Zhengrui Guo, Fengtao Zhou, Yihui Wang, Yingxue Xu, Jinbang Li, Fang Yan, Yu Cai, Zhengjie Zhu, Cheng Jin, Yi Lin, Xinrui Jiang, Chenglong Zhao, Danyi Li, Anjia Han, Zhenhui Li, Ronald Cheong Kin Chan, Jiguang Wang, Peng Fei, Kwang-Ting Cheng, Shaoting Zhang, Li Liang, and Hao Chen. A generalizable pathology foundation model using a unified knowledge distillation pretraining framework. Nat. Biomed. Eng., pages 1–20, 2 September 2025. URL: http://dx.doi.org/10.1038/s41551-025-01488-4, doi:10.1038/s41551-025-01488-4.
Saarthak Kapse, Mehmet Aygün, Elijah Cole, Emma Lundberg, Le Song, and Eric P. Xing. GenBio-PathFM: a state-of-the-art foundation model for histopathology. bioRxiv, 2026. URL: https://www.biorxiv.org/content/10.64898/2026.03.17.712534v1, doi:10.1101/2026.03.17.712534.
Hanwen Xu, Naoto Usuyama, Jaspreet Bagga, Sheng Zhang, Rajesh Rao, Tristan Naumann, Cliff Wong, Zelalem Gero, Javier González, Yu Gu, Yanbo Xu, Mu Wei, Wenhui Wang, Shuming Ma, Furu Wei, Jianwei Yang, Chunyuan Li, Jianfeng Gao, Jaylen Rosemon, Tucker Bower, Soohee Lee, Roshanthi Weerasinghe, Bill J Wright, Ari Robicsek, Brian Piening, Carlo Bifulco, Sheng Wang, and Hoifung Poon. A whole-slide foundation model for digital pathology from real-world data. Nature, 630(8015):181–188, June 2024. URL: https://www.nature.com/articles/s41586-024-07441-w, doi:10.1038/s41586-024-07441-w.
Alexandre Filiot, Nicolas Dop, Oussama Tchita, Auriane Riou, Rémy Dubois, Thomas Peeters, Daria Valter, Marin Scalbert, Charlie Saillard, Geneviève Robin, and Antoine Olivier. Distilling foundation models for robust and efficient models in digital pathology. arXiv [cs.CV], 27 January 2025. URL: http://arxiv.org/abs/2501.16239.
Charlie Saillard, Rodolphe Jenatton, Felipe Llinares-López, Zelda Mariet, David Cahané, Eric Durand, and Jean-Philippe Vert. H-optimus-0. 2024. URL: bioptimus/releases.
Bioptimus. H-optimus-1. 2025. URL: https://huggingface.co/bioptimus/H-optimus-1.
Dmitry Nechaev, Alexey Pchelnikov, and Ekaterina Ivanova. Hibou: a family of foundational vision transformers for pathology. arXiv [eess.IV], 7 June 2024. URL: http://arxiv.org/abs/2406.05074.
Mingu Kang, Heon Song, Seonwook Park, Donggeun Yoo, and Sérgio Pereira. Benchmarking self-supervised learning on diverse pathology datasets. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), 3344–3354. June 2023. URL: http://arxiv.org/abs/2212.04690.
Mikhail Karasikov, Joost van Doorn, Nicolas Känzig, Melis Erdal Cesur, Hugo Mark Horlings, Robert Berke, Fei Tang, and Sebastian Otálora. Training state-of-the-art pathology foundation models with orders of magnitude less data. arXiv [cs.CV], 7 April 2025. URL: http://arxiv.org/abs/2504.05186.
missing journal in kaplan2025openmidnight
Fang Yan, Jianfeng Wu, Jiawen Li, Wei Wang, Yirong Chen, Linda Wei, Jiaxuan Lu, Wen Chen, Zizhao Gao, Jianan Li, Heng Li, Hong Yan, Jiabo Ma, Minda Chen, Yang Lu, Qing Chen, Yizhi Wang, Xitong Ling, Xuenian Wang, Zihan Wang, Qiang Huang, Shengyi Hua, Mianxin Liu, Lei Ma, Tian Shen, Xiaofan Zhang, Yonghong He, Hao Chen, Shaoting Zhang, and Zhe Wang. PathOrchestra: a comprehensive foundation model for computational pathology with over 100 diverse clinical-grade tasks. NPJ Digit. Med., 8(1):695, 19 November 2025. URL: http://dx.doi.org/10.1038/s41746-025-02027-w, doi:10.1038/s41746-025-02027-w.
Alexandre Filiot, Ridouane Ghermi, Antoine Olivier, Paul Jacob, Lucas Fidon, Axel Camara, Alice Mac Kain, Charlie Saillard, and Jean-Baptiste Schiratti. Scaling self-supervised learning for histopathology with masked image modeling. medRxiv, pages 2023.07.21.23292757, 26 July 2023. URL: https://www.medrxiv.org/content/10.1101/2023.07.21.23292757v3.abstract, doi:10.1101/2023.07.21.23292757.
Alexandre Filiot, Paul Jacob, Alice Mac Kain, and Charlie Saillard. Phikon-v2, a large and public feature extractor for biomarker prediction. arXiv [eess.IV], 13 September 2024. URL: http://arxiv.org/abs/2409.09173.
Richard J Chen, Tong Ding, Ming Y Lu, Drew F K Williamson, Guillaume Jaume, Andrew H Song, Bowen Chen, Andrew Zhang, Daniel Shao, Muhammad Shaban, Mane Williams, Lukas Oldenburg, Luca L Weishaupt, Judy J Wang, Anurag Vaidya, Long Phi Le, Georg Gerber, Sharifa Sahai, Walt Williams, and Faisal Mahmood. Towards a general-purpose foundation model for computational pathology. Nat. Med., 30(3):850–862, 19 March 2024. URL: https://www.nature.com/articles/s41591-024-02857-3, doi:10.1038/s41591-024-02857-3.
Eugene Vorontsov, Alican Bozkurt, Adam Casson, George Shaikovski, Michal Zelechowski, Kristen Severson, Eric Zimmermann, James Hall, Neil Tenenholtz, Nicolo Fusi, Ellen Yang, Philippe Mathieu, Alexander van Eck, Donghun Lee, Julian Viret, Eric Robert, Yi Kan Wang, Jeremy D Kunz, Matthew C H Lee, Jan H Bernhard, Ran A Godrich, Gerard Oakley, Ewan Millar, Matthew Hanna, Hannah Wen, Juan A Retamero, William A Moye, Razik Yousfi, Christopher Kanan, David S Klimstra, Brandon Rothrock, Siqi Liu, and Thomas J Fuchs. A foundation model for clinical-grade computational pathology and rare cancers detection. Nat. Med., 30(10):2924–2935, 22 October 2024. URL: http://dx.doi.org/10.1038/s41591-024-03141-0, doi:10.1038/s41591-024-03141-0.
Eric Zimmermann, Eugene Vorontsov, Julian Viret, Adam Casson, Michal Zelechowski, George Shaikovski, Neil Tenenholtz, James Hall, David Klimstra, Razik Yousfi, Thomas Fuchs, Nicolo Fusi, Siqi Liu, and Kristen Severson. Virchow2: scaling self-supervised mixed magnification models in pathology. arXiv [cs.CV], 1 August 2024. URL: http://arxiv.org/abs/2408.00738.
Sheng Zhang, Yanbo Xu, Naoto Usuyama, Hanwen Xu, Jaspreet Bagga, Robert Tinn, Sam Preston, Rajesh Rao, Mu Wei, Naveen Valluri, Cliff Wong, Andrea Tupini, Yu Wang, Matt Mazzola, Swadheen Shukla, Lars Liden, Jianfeng Gao, Angela Crabtree, Brian Piening, Carlo Bifulco, Matthew P Lungren, Tristan Naumann, Sheng Wang, and Hoifung Poon. A multimodal biomedical foundation model trained from fifteen million image-text pairs. NEJM AI, 2024. URL: https://ai.nejm.org/doi/full/10.1056/AIoa2400640, doi:10.1056/AIoa2400640.
Ming Y Lu, Bowen Chen, Drew F K Williamson, Richard J Chen, Ivy Liang, Tong Ding, Guillaume Jaume, Igor Odintsov, Long Phi Le, Georg Gerber, Anil V Parwani, Andrew Zhang, and Faisal Mahmood. A visual-language foundation model for computational pathology. Nat. Med., 30(3):863–874, 19 March 2024. URL: http://dx.doi.org/10.1038/s41591-024-02856-4, doi:10.1038/s41591-024-02856-4.
Jinxi Xiang, Xiyue Wang, Xiaoming Zhang, Yinghua Xi, Feyisope Eweje, Yijiang Chen, Yuchen Li, Colin Bergstrom, Matthew Gopaulchan, Ted Kim, Kun-Hsing Yu, Sierra Willens, Francesca Maria Olguin, Jeffrey J Nirschl, Joel Neal, Maximilian Diehn, Sen Yang, and Ruijiang Li. A vision-language foundation model for precision oncology. Nature, 638(8051):769–778, 8 February 2025. URL: http://dx.doi.org/10.1038/s41586-024-08378-w, doi:10.1038/s41586-024-08378-w.
Andrew Sellergren, Sahar Kazemzadeh, Tiam Jaroensri, Atilla Kiraly, Madeleine Traverse, Timo Kohlberger, Shawn Xu, Fayaz Jamil, Cían Hughes, Charles Lau, Justin Chen, Fereshteh Mahvar, Liron Yatziv, Tiffany Chen, Bram Sterling, Stefanie Anna Baby, Susanna Maria Baby, Jeremy Lai, Samuel Schmidgall, Lu Yang, Kejia Chen, Per Bjornsson, Shashir Reddy, Ryan Brush, Kenneth Philbrick, Mercy Asiedu, Ines Mezerreg, Howard Hu, Howard Yang, Richa Tiwari, Sunny Jansen, Preeti Singh, Yun Liu, Shekoofeh Azizi, Aishwarya Kamath, Johan Ferret, Shreya Pathak, Nino Vieillard, Ramona Merhej, Sarah Perrin, Tatiana Matejovicova, Alexandre Ramé, Morgane Riviere, Louis Rouillard, Thomas Mesnard, Geoffrey Cideron, Jean-Bastien Grill, Sabela Ramos, Edouard Yvinec, Michelle Casbon, Elena Buchatskaya, Jean-Baptiste Alayrac, Dmitry Lepikhin, Vlad Feinberg, Sebastian Borgeaud, Alek Andreev, Cassidy Hardin, Robert Dadashi, Léonard Hussenot, Armand Joulin, Olivier Bachem, Yossi Matias, Katherine Chou, Avinatan Hassidim, Kavi Goel, Clement Farabet, Joelle Barral, Tris Warkentin, Jonathon Shlens, David Fleet, Victor Cotruta, Omar Sanseviero, Gus Martins, Phoebe Kirk, Anand Rao, Shravya Shetty, David F Steiner, Can Kirmizibayrak, Rory Pilgrim, Daniel Golden, and Lin Yang. MedGemma technical report. arXiv [cs.AI], 12 July 2025. URL: http://arxiv.org/abs/2507.05201, doi:10.48550/arXiv.2507.05201.
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Wisdom Oluchi Ikezogwo, Mehmet Saygin Seyfioglu, Fatemeh Ghezloo, Dylan Stefan Chan Geva, Fatwir Sheikh Mohammed, Pavan Kumar Anand, Ranjay Krishna, and Linda Shapiro. Quilt-1M: one million image-text pairs for histopathology. In Advances in Neural Information Processing Systems. 2023. URL: http://arxiv.org/abs/2306.11207.
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Carsen Stringer, Tim Wang, Michalis Michaelos, and Marius Pachitariu. Cellpose: a generalist algorithm for cellular segmentation. Nat. Methods, 18(1):100–106, January 2021. URL: http://dx.doi.org/10.1038/s41592-020-01018-x, doi:10.1038/s41592-020-01018-x.
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