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Background: Deep learning (DL) can extract predictive and prognostic biomarkers from routine pathology slides in colorectal cancer.
A computational approach to edge detection
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A large-scale prospective cohort study on diet and cancer in the netherlands
P A van den Brandt, R A Goldbohm, P van ’t Veer, A Volovics, R J Hermus, and F Sturmans · 1990
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Expression of DNA double-strand break repair proteins ATM and BRCA1 predicts survival in colorectal cancer
Heike Grabsch, Mit Dattani, Lisa Barker, Nicola Maughan, Karen Maude, Olaf Hansen, Helmut E Gabbert, Phil Quirke, and Wolfram Mueller · 2006
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QUASAR Collaborative Group · 2007
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Hermann Brenner, Jenny Chang-Claude, Christoph M Seiler, and Michael Hoffmeister · 2011
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H J Schmoll, E Van Cutsem, A Stein, V Valentini, B Glimelius, K Haustermans, B Nordlinger, C J van de Velde, J Balmana, J Regula, I D Nagtegaal, R G Beets-Tan, D Arnold, F Ciardiello, P Hoff, D Kerr, C H Köhne, R Labianca, T Price, W Scheithauer, A Sobrero, J Tabernero, D Aderka, S Barroso, G Bodoky, J Y Douillard, H El Ghazaly, J Gallardo, A Garin, R Glynne-Jones, K Jordan, A Meshcheryakov, D Papamichail, P Pfeiffer, I Souglakos, S Turhal, and A Cervantes · 2012
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Comprehensive molecular characterization of human colon and rectal cancer
Cancer Genome Atlas Network · 2012
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Claudio Isella, Laura Cantini, Sara Erika Bellomo, and Enzo Medico · 2014
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Diederik P Kingma and Jimmy Ba · 2014
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Nathan J Edwards, Mauricio Oberti, Ratna R Thangudu, Shuang Cai, Peter B McGarvey, Shine Jacob, Subha Madhavan, and Karen A Ketchum · 2015
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Statin use and survival after colorectal cancer: the importance of comprehensive confounder adjustment
Michael Hoffmeister, Lina Jansen, Anja Rudolph, Csaba Toth, Matthias Kloor, Wilfried Roth, Hendrik Bläker, Jenny Chang-Claude, and Hermann Brenner · 2015
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Decoupled weight decay regularization
Ilya Loshchilov and Frank Hutter · 2017
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NCCN guidelines insights: Colon cancer, version 2.2018
Al B Benson, Alan P Venook, Mahmoud M Al-Hawary, Lynette Cederquist, Yi-Jen Chen, Kristen K Ciombor, Stacey Cohen, Harry S Cooper, Dustin Deming, Paul F Engstrom, Ignacio Garrido-Laguna, Jean L Grem, Axel Grothey, Howard S Hochster, Sarah Hoffe, Steven Hunt, Ahmed Kamel, Natalie Kirilcuk, Smitha Krishnamurthi, Wells A Messersmith, Jeffrey Meyerhardt, Eric D Miller, Mary F Mulcahy, James D Murphy, Steven Nurkin, Leonard Saltz, Sunil Sharma, David Shibata, John M Skibber, Constantinos T Sofocleous, Elena M Stoffel, Eden Stotsky-Himelfarb, Christopher G Willett, Evan Wuthrick, Kristina M Gregory, and Deborah A Freedman-Cass · 2018
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Biomarkers in colorectal cancer: Current clinical utility and future perspectives
Marco Vacante, Antonio Maria Borzì, Francesco Basile, and Antonio Biondi · 2018
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Attention-based deep multiple instance learning
Maximilian Ilse, Jakub Tomczak, and Max Welling · 2018
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Outcomes of chemotherapy for microsatellite Instable-High metastatic colorectal cancers
Katerina Shulman, Ofra Barnett-Griness, Vered Friedman, Joel K Greenson, Stephen B Gruber, Flavio Lejbkowicz, and Gad Rennert · 2018
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Classification and mutation prediction from non-small cell lung cancer histopathology images using deep learning
Nicolas Coudray, Paolo Santiago Ocampo, Theodore Sakellaropoulos, Navneet Narula, Matija Snuderl, David Fenyö, Andre L Moreira, Narges Razavian, and Aristotelis Tsirigos · 2018
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Deep learning can predict microsatellite instability directly from histology in gastrointestinal cancer
Jakob Nikolas Kather, Alexander T Pearson, Niels Halama, Dirk Jäger, Jeremias Krause, Sven H Loosen, Alexander Marx, Peter Boor, Frank Tacke, Ulf Peter Neumann, Heike I Grabsch, Takaki Yoshikawa, Hermann Brenner, Jenny Chang-Claude, Michael Hoffmeister, Christian Trautwein, and Tom Luedde · 2019
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Proteogenomic analysis of human colon cancer reveals new therapeutic opportunities
Suhas Vasaikar, Chen Huang, Xiaojing Wang, Vladislav A Petyuk, Sara R Savage, Bo Wen, Yongchao Dou, Yun Zhang, Zhiao Shi, Osama A Arshad, Marina A Gritsenko, Lisa J Zimmerman, Jason E McDermott, Therese R Clauss, Ronald J Moore, Rui Zhao, Matthew E Monroe, Yi-Ting Wang, Matthew C Chambers, Robbert J C Slebos, Ken S Lau, Qianxing Mo, Li Ding, Matthew Ellis, Mathangi Thiagarajan, Christopher R Kinsinger, Henry Rodriguez, Richard D Smith, Karin D Rodland, Daniel C Liebler, Tao Liu, Bing Zhang, and Clinical Proteomic Tumor Analysis Consortium · 2019
Cited alongside, same era.
Regional multidisciplinary team intervention programme to improve colorectal cancer outcomes: study protocol for the yorkshire cancer research bowel cancer improvement programme (YCR BCIP), 2019
Deep learning model for the prediction of microsatellite instability in colorectal cancer: a diagnostic study
Rikiya Yamashita, Jin Long, Teri Longacre, Lan Peng, Gerald Berry, Brock Martin, John Higgins, Daniel L Rubin, and Jeanne Shen · 2021
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Swin transformer: Hierarchical vision transformer using shifted windows
Ze Liu, Yutong Lin, Yue Cao, Han Hu, Yixuan Wei, Zheng Zhang, Stephen Lin, and Baining Guo · 2021
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TransMIL: Transformer based correlated multiple instance learning for whole slide image classification
Zhuchen Shao, Hao Bian, Yang Chen, Yifeng Wang, Jian Zhang, Xiangyang Ji, and Yongbing Zhang · 2021
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PAIP 2019: Liver cancer segmentation challenge
Yoo Jung Kim, Hyungjoon Jang, Kyoungbun Lee, Seongkeun Park, Sung-Gyu Min, Choyeon Hong, Jeong Hwan Park, Kanggeun Lee, Jisoo Kim, Wonjae Hong, Hyun Jung, Yanling Liu, Haran Rajkumar, Mahendra Khened, Ganapathy Krishnamurthi, Sen Yang, Xiyue Wang, Chang Hee Han, Jin Tae Kwak, Jianqiang Ma, Zhe Tang, Bahram Marami, Jack Zeineh, Zixu Zhao, Pheng-Ann Heng, Rüdiger Schmitz, Frederic Madesta, Thomas Rösch, Rene Werner, Jie Tian, Elodie Puybareau, Matteo Bovio, Xiufeng Zhang, Yifeng Zhu, Se Young Chun, Won-Ki Jeong, Peom Park, and Jinwook Choi · 2021
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John Taylor, Penny Wright, Hannah Rossington, Jackie Mara, Amy Glover, Nick West, Eva Morris, and Phillip Quirke · 2019
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Super-convergence: very fast training of neural networks using large learning rates
Leslie N Smith and Nicholay Topin · 2019
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Artificial intelligence in digital pathology - new tools for diagnosis and precision oncology
Kaustav Bera, Kurt A Schalper, David L Rimm, Vamsidhar Velcheti, and Anant Madabhushi · 2019
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Clinical-grade computational pathology using weakly supervised deep learning on whole slide images
Gabriele Campanella, Matthew G Hanna, Luke Geneslaw, Allen Miraflor, Vitor Werneck Krauss Silva, Klaus J Busam, Edi Brogi, Victor E Reuter, David S Klimstra, and Thomas J Fuchs · 2019
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Development and interpretation of a pathomics-based model for the prediction of microsatellite instability in colorectal cancer
Rui Cao, Fan Yang, Si-Cong Ma, Li Liu, Yu Zhao, Yan Li, De-Hua Wu, Tongxin Wang, Wei-Jia Lu, Wei-Jing Cai, Hong-Bo Zhu, Xue-Jun Guo, Yu-Wen Lu, Jun-Jie Kuang, Wen-Jing Huan, Wei-Min Tang, Kun Huang, Junzhou Huang, Jianhua Yao, and Zhong-Yi Dong · 2020
Cited alongside, same era.
Clinical-Grade detection of microsatellite instability in colorectal tumors by deep learning
Amelie Echle, Heike Irmgard Grabsch, Philip Quirke, Piet A van den Brandt, Nicholas P West, Gordon G A Hutchins, Lara R Heij, Xiuxiang Tan, Susan D Richman, Jeremias Krause, Elizabeth Alwers, Josien Jenniskens, Kelly Offermans, Richard Gray, Hermann Brenner, Jenny Chang-Claude, Christian Trautwein, Alexander T Pearson, Peter Boor, Tom Luedde, Nadine Therese Gaisa, Michael Hoffmeister, and Jakob Nikolas Kather · 2020
Cited alongside, same era.
Prediction of clinically actionable genetic alterations from colorectal cancer histopathology images using deep learning
Hyun-Jong Jang, Ahwon Lee, J Kang, In Hye Song, and Sung Hak Lee · 2020
Cited alongside, same era.
National institute for health and care excellence. (2020). colorectal cancer [NICE guideline no. 151]. https://www.nice.org.uk/guidance/ng151
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Cited alongside, same era.
Neoadjuvant immunotherapy leads to pathological responses in MMR-proficient and MMR-deficient early-stage colon cancers
Myriam Chalabi, Lorenzo F Fanchi, Krijn K Dijkstra, José G Van den Berg, Arend G Aalbers, Karolina Sikorska, Marta Lopez-Yurda, Cecile Grootscholten, Geerard L Beets, Petur Snaebjornsson, Monique Maas, Marjolijn Mertz, Vivien Veninga, Gergana Bounova, Annegien Broeks, Regina G Beets-Tan, Thomas R de Wijkerslooth, Anja U van Lent, Hendrik A Marsman, Elvira Nuijten, Niels F Kok, Maria Kuiper, Wieke H Verbeek, Marleen Kok, Monique E Van Leerdam, Ton N Schumacher, Emile E Voest, and John B Haanen · 2020
Cited alongside, same era.
Lynch syndrome screening in colorectal cancer: results of a prospective two-year regional programme validating the NICE diagnostics guidance pathway across a 5.2 million population
Nicholas P West, Niall Gallop, Danny Kaye, Amy Glover, Caroline Young, Gordon G A Hutchins, Scarlet F Brockmoeller, Alice C Westwood, Hannah Rossington, Philip Quirke, and behalf of the Yorkshire Cancer Research Bowel Cancer Improvement Programme group · 2021
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DeepSMILE: Contrastive self-supervised pre-training benefits MSI and HRD classification directly from H&E whole-slide images in colorectal and breast cancer
Yoni Schirris, Efstratios Gavves, Iris Nederlof, Hugo Mark Horlings, and Jonas Teuwen · 2022
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Weakly supervised annotation-free cancer detection and prediction of genotype in routine histopathology
Peter Leonard Schrammen, Narmin Ghaffari Laleh, Amelie Echle, Daniel Truhn, Volkmar Schulz, Titus J Brinker, Hermann Brenner, Jenny Chang-Claude, Elizabeth Alwers, Alexander Brobeil, Matthias Kloor, Lara R Heij, Dirk Jäger, Christian Trautwein, Heike I Grabsch, Philip Quirke, Nicholas P West, Michael Hoffmeister, and Jakob Nikolas Kather · 2022
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LBA7 neoadjuvant immune checkpoint inhibition in locally advanced MMR-deficient colon cancer: The NICHE-2 study
M Chalabi, Y L Verschoor, J van den Berg, K Sikorska, G Beets, A V Lent, M C Grootscholten, A Aalbers, N Buller, H Marsman, and Others · 2022
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920P blind validation of MSIntuit, an AI-based pre-screening tool for MSI detection from colorectal cancer H&E slides
M Svrcek, C Saillard, R Dubois, N Loiseau, and others · 2022
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An aggregation of aggregation methods in computational pathology
Mohsin Bilal, Robert Jewsbury, Ruoyu Wang, Hammam M AlGhamdi, Amina Asif, Mark Eastwood, and Nasir Rajpoot · 2022
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Transformers in medical image analysis: A review
K He, C Gan, Z Li, I Rekik, Z Yin, W Ji, Y Gao, and others · 2022
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Transformer-based unsupervised contrastive learning for histopathological image classification
Xiyue Wang, Sen Yang, Jun Zhang, Minghui Wang, Jing Zhang, Wei Yang, Junzhou Huang, and Xiao Han · 2022
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Scaling vision transformers to gigapixel images via hierarchical Self-Supervised learning
Richard J Chen, Chengkuan Chen, Yicong Li, Tiffany Y Chen, Andrew D Trister, Rahul G Krishnan, and Faisal Mahmood · 2022
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Local attention graph-based transformer for multi-target genetic alteration prediction
Daniel Reisenbüchler, Sophia J. Wagner, Melanie Boxberg, and Tingying Peng · 2022
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Expression of proteins associated with the warburg-effect and survival in colorectal cancer
Kelly Offermans, Josien Ca Jenniskens, Colinda Cjm Simons, Iryna Samarska, Gregorio E Fazzi, Kim M Smits, Leo J Schouten, Matty P Weijenberg, Heike I Grabsch, and Piet A van den Brandt · 2022
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PD-1 blockade in mismatch Repair–Deficient, locally advanced rectal cancer
Andrea Cercek, Melissa Lumish, Jenna Sinopoli, Jill Weiss, Jinru Shia, Michelle Lamendola-Essel, Imane H El Dika, Neil Segal, Marina Shcherba, Ryan Sugarman, Zsofia Stadler, Rona Yaeger, J Joshua Smith, Benoit Rousseau, Guillem Argiles, Miteshkumar Patel, Avni Desai, Leonard B Saltz, Maria Widmar, Krishna Iyer, Janie Zhang, Nicole Gianino, Christopher Crane, Paul B Romesser, Emmanouil P Pappou, Philip Paty, Julio Garcia-Aguilar, Mithat Gonen, Marc Gollub, Martin R Weiser, Kurt A Schalper, and Luis A Diaz · 2022
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Artificial intelligence in histopathology: enhancing cancer research and clinical oncology
Artem Shmatko, Narmin Ghaffari Laleh, Moritz Gerstung, and Jakob Nikolas Kather · 2022
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A clinical decision support system optimising adjuvant chemotherapy for colorectal cancers by integrating deep learning and pathological staging markers: a development and validation study, 2022
Andreas Kleppe, Ole-Johan Skrede, Sepp De Raedt, Tarjei S Hveem, Hanne A Askautrud, Jørn E Jacobsen, David N Church, Arild Nesbakken, Neil A Shepherd, Marco Novelli, Rachel Kerr, Knut Liestøl, David J Kerr, and Håvard E Danielsen · 2022
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