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Federated learning enables big data for rare cancer boundary detection

  • Sarthak Pati
  • , Ujjwal Baid
  • , Brandon Edwards
  • , Micah Sheller
  • , Shih Han Wang
  • , G. Anthony Reina
  • , Patrick Foley
  • , Alexey Gruzdev
  • , Deepthi Karkada
  • , Christos Davatzikos
  • , Chiharu Sako
  • , Satyam Ghodasara
  • , Michel Bilello
  • , Suyash Mohan
  • , Philipp Vollmuth
  • , Gianluca Brugnara
  • , Chandrakanth J. Preetha
  • , Felix Sahm
  • , Klaus Maier-Hein
  • , Maximilian Zenk
  • Martin Bendszus, Wolfgang Wick, Evan Calabrese, Jeffrey Rudie, Javier Villanueva-Meyer, Soonmee Cha, Madhura Ingalhalikar, Manali Jadhav, Umang Pandey, Jitender Saini, John Garrett, Matthew Larson, Robert Jeraj, Stuart Currie, Russell Frood, Kavi Fatania, Raymond Y. Huang, Ken Chang, Carmen Balaña Quintero, Jaume Capellades, Josep Puig, Johannes Trenkler, Josef Pichler, Georg Necker, Andreas Haunschmidt, Stephan Meckel, Gaurav Shukla, Spencer Liem, Gregory S. Alexander, Joseph Lombardo, Joshua D. Palmer, Adam E. Flanders, Adam P. Dicker, Haris I. Sair, Craig K. Jones, Archana Venkataraman, Meirui Jiang, Tiffany Y. So, Cheng Chen, Pheng Ann Heng, Qi Dou, Michal Kozubek, Filip Lux, Jan Michálek, Petr Matula, Miloš Keřkovský, Tereza Kopřivová, Marek Dostál, Václav Vybíhal, Michael A. Vogelbaum, J. Ross Mitchell, Joaquim Farinhas, Joseph A. Maldjian, Chandan Ganesh Bangalore Yogananda, Marco C. Pinho, Divya Reddy, James Holcomb, Benjamin C. Wagner, Benjamin M. Ellingson, Timothy F. Cloughesy, Catalina Raymond, Talia Oughourlian, Akifumi Hagiwara, Chencai Wang, Minh Son To, Sargam Bhardwaj, Chee Chong, Marc Agzarian, Alexandre Xavier Falcão, Samuel B. Martins, Bernardo C.A. Teixeira, Flávia Sprenger, David Menotti, Diego R. Lucio, Pamela LaMontagne, Daniel Marcus, Benedikt Wiestler, Florian Kofler, Ivan Ezhov, Marie Metz, Rajan Jain, Matthew Lee, Yvonne W. Lui, Richard McKinley, Johannes Slotboom, Piotr Radojewski, Raphael Meier, Roland Wiest, Derrick Murcia, Eric Fu, Rourke Haas, John Thompson, David Ryan Ormond, Chaitra Badve, Andrew E. Sloan, Vachan Vadmal, Kristin Waite, Rivka R. Colen, Linmin Pei, Murat Ak, Ashok Srinivasan, J. Rajiv Bapuraj, Arvind Rao, Nicholas Wang, Ota Yoshiaki, Toshio Moritani, Sevcan Turk, Joonsang Lee, Snehal Prabhudesai, Fanny Morón, Jacob Mandel, Konstantinos Kamnitsas, Ben Glocker, Luke V.M. Dixon, Matthew Williams, Peter Zampakis, Vasileios Panagiotopoulos, Panagiotis Tsiganos, Sotiris Alexiou, Ilias Haliassos, Evangelia I. Zacharaki, Konstantinos Moustakas, Christina Kalogeropoulou, Dimitrios M. Kardamakis, Yoon Seong Choi, Seung Koo Lee, Jong Hee Chang, Sung Soo Ahn, Bing Luo, Laila Poisson, Ning Wen, Pallavi Tiwari, Ruchika Verma, Rohan Bareja, Ipsa Yadav, Jonathan Chen, Neeraj Kumar, Marion Smits, Sebastian R. van der Voort, Ahmed Alafandi, Fatih Incekara, Maarten M.J. Wijnenga, Georgios Kapsas, Renske Gahrmann, Joost W. Schouten, Hendrikus J. Dubbink, Arnaud J.P.E. Vincent, Martin J. van den Bent, Pim J. French, Stefan Klein, Yading Yuan, Sonam Sharma, Tzu Chi Tseng, Saba Adabi, Simone P. Niclou, Olivier Keunen, Ann Christin Hau, Martin Vallières, David Fortin, Martin Lepage, Bennett Landman, Karthik Ramadass, Kaiwen Xu, Silky Chotai, Lola B. Chambless, Akshitkumar Mistry, Reid C. Thompson, Yuriy Gusev, Krithika Bhuvaneshwar, Anousheh Sayah, Camelia Bencheqroun, Anas Belouali, Subha Madhavan, Thomas C. Booth, Alysha Chelliah, Marc Modat, Haris Shuaib, Carmen Dragos, Aly Abayazeed, Kenneth Kolodziej, Michael Hill, Ahmed Abbassy, Shady Gamal, Mahmoud Mekhaimar, Mohamed Qayati, Mauricio Reyes, Ji Eun Park, Jihye Yun, Ho Sung Kim, Abhishek Mahajan, Mark Muzi, Sean Benson, Regina G.H. Beets-Tan, Jonas Teuwen, Alejandro Herrera-Trujillo, Maria Trujillo, William Escobar, Ana Abello, Jose Bernal, Jhon Gómez, Joseph Choi, Stephen Baek, Yusung Kim, Heba Ismael, Bryan Allen, John M. Buatti, Aikaterini Kotrotsou, Hongwei Li, Tobias Weiss, Michael Weller, Andrea Bink, Bertrand Pouymayou, Hassan F. Shaykh, Joel Saltz, Prateek Prasanna, Sampurna Shrestha, Kartik M. Mani, David Payne, Tahsin Kurc, Enrique Pelaez, Heydy Franco-Maldonado, Francis Loayza, Sebastian Quevedo, Pamela Guevara, Esteban Torche, Cristobal Mendoza, Franco Vera, Elvis Ríos, Eduardo López, Sergio A. Velastin, Godwin Ogbole, Mayowa Soneye, Dotun Oyekunle, Olubunmi Odafe-Oyibotha, Babatunde Osobu, Mustapha Shu’aibu, Adeleye Dorcas, Farouk Dako, Amber L. Simpson, Mohammad Hamghalam, Jacob J. Peoples, Ricky Hu, Anh Tran, Danielle Cutler, Fabio Y. Moraes, Michael A. Boss, James Gimpel, Deepak Kattil Veettil, Kendall Schmidt, Brian Bialecki, Sailaja Marella, Cynthia Price, Lisa Cimino, Charles Apgar, Prashant Shah, Bjoern Menze, Jill S. Barnholtz-Sloan, Jason Martin, Spyridon Bakas
  • University of Pennsylvania
  • Technical University of Munich
  • Intel
  • Heidelberg University 
  • German Cancer Research Center
  • University of California at San Francisco
  • Symbiosis International University
  • National Institute of Mental Health and Neurosciences
  • University of Wisconsin-Madison
  • Leeds Teaching Hospitals NHS Trust
  • Harvard University
  • Massachusetts General Hospital
  • Institute Catala Oncologia
  • Consorci MAR Parc de Salut de Barcelona
  • Josep Trueta University Hospital
  • Johannes Kepler University Linz
  • RKH Klinikum Ludwigsburg
  • Christiana Care Health System
  • Thomas Jefferson University
  • University of Maryland, Baltimore
  • Ohio State University
  • Johns Hopkins University
  • Chinese University of Hong Kong
  • Masaryk University
  • Moffitt Cancer Center
  • University of Alberta
  • Alberta Machine Intelligence Institute
  • University of Texas Southwestern Medical Center
  • University of California at Los Angeles
  • Flinders University
  • Flinders Medical Centre
  • Baylor College of Medicine
  • Universidade Estadual de Campinas
  • Instituto Federal de São Paulo
  • Instituto de Neurologia de Curitiba
  • Universidade Federal do Paraná
  • Washington University St. Louis
  • New York University
  • University of Bern
  • University of Colorado Anschutz Medical Campus
  • Case Western Reserve University
  • National Institutes of Health
  • University of Pittsburgh
  • University of Texas MD Anderson Cancer Center
  • University of Michigan, Ann Arbor
  • Imperial College London
  • University of Oxford
  • Imperial College Healthcare NHS Trust
  • University of Patras
  • Yonsei University
  • Henry Ford Health System
  • Shanghai Jiao Tong University
  • Erasmus University Rotterdam
  • Icahn School of Medicine at Mount Sinai
  • Luxembourg Institute of Health
  • Laboratoire National de Santé
  • Université de Sherbrooke
  • Vanderbilt University
  • Georgetown University
  • MedStar Georgetown University Hospital
  • King's College London
  • King's College Hospital NHS Foundation Trust
  • Buckinghamshire Healthcare NHS Trust
  • Queen's University Kingston
  • Neosoma Inc.
  • Cairo University
  • University of Ulsan
  • Clatterbridge Cancer Centre NHS Foundation Trust
  • University of Washington
  • Netherlands Cancer Institute
  • Maastricht University
  • Clínica Imbanaco Grupo Quirón Salud
  • Universidad del Valle
  • University of Edinburgh
  • University of Iowa
  • University of Zurich
  • University of Alabama at Birmingham
  • Stony Brook University
  • Escuela Superior Politécnica del Litoral
  • Guayaquil Ecuador
  • Universidad Católica de Cuenca
  • Universidad de Concepción
  • Queen Mary University of London
  • University College Hospital, Ibadan
  • Lagos
  • Muhammad Abdullahi Wase Teaching Hospital
  • Obafemi Awolowo University
  • Islamic Azad University
  • American College of Radiology

Research output: Contribution to journalArticlepeer-review

311 Scopus citations

Abstract

Although machine learning (ML) has shown promise across disciplines, out-of-sample generalizability is concerning. This is currently addressed by sharing multi-site data, but such centralization is challenging/infeasible to scale due to various limitations. Federated ML (FL) provides an alternative paradigm for accurate and generalizable ML, by only sharing numerical model updates. Here we present the largest FL study to-date, involving data from 71 sites across 6 continents, to generate an automatic tumor boundary detector for the rare disease of glioblastoma, reporting the largest such dataset in the literature (n = 6, 314). We demonstrate a 33% delineation improvement for the surgically targetable tumor, and 23% for the complete tumor extent, over a publicly trained model. We anticipate our study to: 1) enable more healthcare studies informed by large diverse data, ensuring meaningful results for rare diseases and underrepresented populations, 2) facilitate further analyses for glioblastoma by releasing our consensus model, and 3) demonstrate the FL effectiveness at such scale and task-complexity as a paradigm shift for multi-site collaborations, alleviating the need for data-sharing.

Original languageEnglish
Article number7346
JournalNature Communications
Volume13
Issue number1
DOIs
StatePublished - Dec 2022

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