Learn2Reg: Comprehensive Multi-Task Medical Image Registration Challenge, Dataset and Evaluation in the Era of Deep Learning.

Journal: IEEE transactions on medical imaging
PMID:

Abstract

Image registration is a fundamental medical image analysis task, and a wide variety of approaches have been proposed. However, only a few studies have comprehensively compared medical image registration approaches on a wide range of clinically relevant tasks. This limits the development of registration methods, the adoption of research advances into practice, and a fair benchmark across competing approaches. The Learn2Reg challenge addresses these limitations by providing a multi-task medical image registration data set for comprehensive characterisation of deformable registration algorithms. A continuous evaluation will be possible at https://learn2reg.grand-challenge.org. Learn2Reg covers a wide range of anatomies (brain, abdomen, and thorax), modalities (ultrasound, CT, MR), availability of annotations, as well as intra- and inter-patient registration evaluation. We established an easily accessible framework for training and validation of 3D registration methods, which enabled the compilation of results of over 65 individual method submissions from more than 20 unique teams. We used a complementary set of metrics, including robustness, accuracy, plausibility, and runtime, enabling unique insight into the current state-of-the-art of medical image registration. This paper describes datasets, tasks, evaluation methods and results of the challenge, as well as results of further analysis of transferability to new datasets, the importance of label supervision, and resulting bias. While no single approach worked best across all tasks, many methodological aspects could be identified that push the performance of medical image registration to new state-of-the-art performance. Furthermore, we demystified the common belief that conventional registration methods have to be much slower than deep-learning-based methods.

Authors

  • Alessa Hering
    Fraunhofer Institute for Digital Medicine MEVIS, Maria-Goeppert-Str. 3, 23562, Lübeck, Germany. alessa.hering@mevis.fraunhofer.de.
  • Lasse Hansen
    Institute of Medical Informatics, University of Lübeck, Ratzeburger Allee 160, 23562, Lübeck, Germany. hansen@imi.uni-luebeck.de.
  • Tony C W Mok
  • Albert C S Chung
  • Hanna Siebert
  • Stephanie Hager
  • Annkristin Lange
  • Sven Kuckertz
    Fraunhofer Institute for Digital Medicine MEVIS, Maria-Goeppert-Str. 3, 23562, Lübeck, Germany.
  • Stefan Heldmann
    Fraunhofer Institute for Digital Medicine MEVIS, Maria-Goeppert-Str. 3, 23562, Lübeck, Germany.
  • Wei Shao
  • Sulaiman Vesal
    Department of Urology, Stanford University, 300 Pasteur Drive, Stanford, CA 94305, USA. Electronic address: svesal@stanford.edu.
  • Mirabela Rusu
    Department of Radiology, Stanford University, Stanford, CA 94305, USA. Electronic address: mirabela.rusu@stanford.edu.
  • Geoffrey Sonn
  • Théo Estienne
    U1030 Molecular Radiotherapy, Paris-Sud University - Gustave Roussy - Inserm - Paris-Saclay University, Villejuif, France; Department of Medical Physics, Gustave Roussy - Paris-Saclay University, Villejuif, France; MICS Laboratory, CentraleSupélec, Paris-Saclay University, Gif-sur-Yvette, France.
  • Maria Vakalopoulou
    Ecole CentraleSupelec, 91190, Gif-sur-Yvette, France.
  • Luyi Han
    College of Electrical Engineering and Information Technology, Sichuan University, Chengdu, 610065, China.
  • Yunzhi Huang
    Department of Biomedical Engineering, College of Materials Science and Engineering, Sichuan University, Chengdu, 610065, China.
  • Pew-Thian Yap
    Department of Radiology and BRIC, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
  • Mikael Brudfors
    Wellcome Centre for Human NeuroimagingUCL Queen Square Institute of Neurology12 Queen Square, London, WC1N 3AR, UK.
  • Yaël Balbastre
  • Samuel Joutard
  • Marc Modat
    Centre for Medical Image Computing (CMIC), Departments of Medical Physics & Biomedical Engineering and Computer Science, University College London, UK.
  • Gal Lifshitz
  • Dan Raviv
  • Jinxin Lv
  • Qiang Li
    Department of Dermatology, Air Force Medical Center, PLA, Beijing, People's Republic of China.
  • Vincent Jaouen
    LaTIM, INSERM UMR 1101, IBRBS, Faculty of Medicine, Univ Brest, 22 avenue Camille Desmoulins, 29238, Brest, France.
  • Dimitris Visvikis
    LaTIM, INSERM, UMR 1101, Brest 29609, France.
  • Constance Fourcade
  • Mathieu Rubeaux
    Department of Imaging, Medicine, and Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, California.
  • Wentao Pan
  • Zhe Xu
    Thayer School of Engineering at Dartmouth College Hanover NH USA john.zhang@dartmouth.edu.
  • Bailiang Jian
  • Francesca De Benetti
  • Marek Wodzinski
  • Niklas Gunnarsson
  • Jens Sjolund
  • Daniel Grzech
  • Huaqi Qiu
  • Zeju Li
    Department of Electronic Engineering, Fudan University, Shanghai, China.
  • Alexander Thorley
  • Jinming Duan
    School of Computer Science University of Birmingham Birmingham UK.
  • Christoph Grosbrohmer
  • Andrew Hoopes
    Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital, Charlestown, MA, 02129, United States.
  • Ingerid Reinertsen
  • Yiming Xiao
  • Bennett Landman
  • Yuankai Huo
    Vanderbilt University, Nashville, TN 37212, USA.
  • Keelin Murphy
    From the Diagnostic Image Analysis Group, Radboud University Medical Center, Geert Groteplein 10, Nijmegen 6500 HB, the Netherlands (K.M., E.T.S., S.S., C.M.S., B.v.G.); Department of Radiology, Bernhoven Hospital, Uden, the Netherlands (H.S.); Department of Radiology, Jeroen Bosch Hospital, 's-Hertogenbosch, the Netherlands (A.J.G.K., M.B.J.M.K., T.S., M.R.); Department of Radiology, Meander Medisch Centrum, Amersfoort, the Netherlands (C.M.S.); and Thirona, Nijmegen, the Netherlands (R.H.H.M.P., A.M., J.M.).
  • Nikolas Lessmann
    Image Sciences Institute, University Medical Center Utrecht and Utrecht University, Utrecht, The Netherlands. Electronic address: N.Lessmann@umcutrecht.nl.
  • Bram van Ginneken
    Diagnostic Image Analysis Group, Department of Radiology and Nuclear Medicine, Radboud University Medical Center, Nijmegen, The Netherlands; Fraunhofer Mevis, Bremen, Germany.
  • Adrian V Dalca
    Computer Science and Artificial Intelligence Lab, MIT, Cambridge, MA, USA; Martinos Center for Biomedical Imaging, Massachusetts General Hospital, HMS, Charlestown, MA, USA; School of Electrical and Computer Engineering, Cornell University, Ithaca, NY, USA. Electronic address: adalca@csail.mit.edu.
  • Mattias P Heinrich
    Institute of Medical Informatics, University of Lübeck, Ratzeburger Allee 160, 23562, Lübeck, Germany. heinrich@imi.uni-luebeck.de.