title: MRBrainS Challenge: Online Evaluation Framework for Brain Image Segmentation in 3T MRI Scans.
abstract: Many methods have been proposed for tissue segmentation in brain MRI scans. The multitude of methods proposed complicates the choice of one method above others. We have therefore established the MRBrainS online evaluation framework for evaluating (semi)automatic algorithms that segment gray matter (GM), white matter (WM), and cerebrospinal fluid (CSF) on 3T brain MRI scans of elderly subjects (65-80 y). Participants apply their algorithms to the provided data, after which their results are evaluated and ranked. Full manual segmentations of GM, WM, and CSF are available for all scans and used as the reference standard. Five datasets are provided for training and fifteen for testing. The evaluated methods are ranked based on their overall performance to segment GM, WM, and CSF and evaluated using three evaluation metrics (Dice, H95, and AVD) and the results are published on the MRBrainS13 website. We present the results of eleven segmentation algorithms that participated in the MRBrainS13 challenge workshop at MICCAI, where the framework was launched, and three commonly used freeware packages: FreeSurfer, FSL, and SPM. The MRBrainS evaluation framework provides an objective and direct comparison of all evaluated algorithms and can aid in selecting the best performing method for the segmentation goal at hand.
authors.affiliation: Image Sciences Institute, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Adriënne M
authors.initials: AM
authors.lastname: Mendrik
authors.affiliation: Image Sciences Institute, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Koen L
authors.initials: KL
authors.lastname: Vincken
authors.affiliation: Image Sciences Institute, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Hugo J
authors.initials: HJ
authors.lastname: Kuijf
authors.affiliation: Philips Healthcare, 5680 DA Best, Netherlands; Faculty of Biomedical Engineering, Eindhoven University of Technology, 5600 MB Eindhoven, Netherlands.
authors.forename: Marcel
authors.initials: M
authors.lastname: Breeuwer
authors.affiliation: Department of Neurology, Brain Center Rudolf Magnus, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Willem H
authors.initials: WH
authors.lastname: Bouvy
authors.affiliation: Department of Radiology, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Jeroen
authors.initials: J
authors.lastname: de Bresser
authors.affiliation: BioImaging Laboratory, Bioengineering Department, University of Louisville, Louisville, KY 40292, USA.
authors.forename: Amir
authors.initials: A
authors.lastname: Alansary
authors.affiliation: Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC, 3015 CN Rotterdam, Netherlands; Department of Computer Science, University of Copenhagen, 2100 Copenhagen, Denmark.
authors.forename: Marleen
authors.initials: M
authors.lastname: de Bruijne
authors.affiliation: Image Analysis and Communications Laboratory, Department of Electrical and Computer Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.
authors.forename: Aaron
authors.initials: A
authors.lastname: Carass
authors.affiliation: BioImaging Laboratory, Bioengineering Department, University of Louisville, Louisville, KY 40292, USA.
authors.forename: Ayman
authors.initials: A
authors.lastname: El-Baz
authors.affiliation: Image Analysis and Communications Laboratory, Department of Electrical and Computer Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.
authors.forename: Amod
authors.initials: A
authors.lastname: Jog
authors.affiliation: Department of Electronics and Communication Engineering, The LNM Institute of Information Technology, Jaipur 302031, India.
authors.forename: Ranveer
authors.initials: R
authors.lastname: Katyal
authors.affiliation: Imaging Laboratories, Robarts Research Institute, London, ON, Canada N6A 5B7; Department of Medical Biophysics, Western University, London, ON, Canada N6A 3K7.
authors.forename: Ali R
authors.initials: AR
authors.lastname: Khan
authors.affiliation: Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC, 3015 CN Rotterdam, Netherlands.
authors.forename: Fedde
authors.initials: F
authors.lastname: van der Lijn
authors.affiliation: Signals and Systems, Chalmers University of Technology, 41296 Gothenburg, Sweden.
authors.forename: Qaiser
authors.initials: Q
authors.lastname: Mahmood
authors.affiliation: Applied Physics Laboratory, Johns Hopkins University, Laurel, MD 20723, USA.
authors.forename: Ryan
authors.initials: R
authors.lastname: Mukherjee
authors.affiliation: Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC, 3015 CN Rotterdam, Netherlands.
authors.forename: Annegreet
authors.initials: A
authors.lastname: van Opbroek
authors.affiliation: Department of Electronics and Communication Engineering, The LNM Institute of Information Technology, Jaipur 302031, India.
authors.forename: Sahil
authors.initials: S
authors.lastname: Paneri
authors.affiliation: Department of Electronics, University of Minho, 4800-058 Guimarães, Portugal.
authors.forename: Sérgio
authors.initials: S
authors.lastname: Pereira
authors.affiliation: Signals and Systems, Chalmers University of Technology, 41296 Gothenburg, Sweden.
authors.forename: Mikael
authors.identifier: 0000-0002-1335-2377
authors.initials: M
authors.lastname: Persson
authors.affiliation: Imaging Laboratories, Robarts Research Institute, London, ON, Canada N6A 5B7; Department of Computing, Imperial College London, London SW7 2AZ, UK.
authors.forename: Martin
authors.initials: M
authors.lastname: Rajchl
authors.affiliation: Computer Science and Engineering Department, State University of New York at Buffalo, Buffalo, NY 14260-2500, USA.
authors.forename: Duygu
authors.initials: D
authors.lastname: Sarikaya
authors.affiliation: Center for Medical Imaging Science and Visualization, Linköping University, 58185 Linköping, Sweden; Department of Radiology and Department of Medical and Health Sciences, Linköping University, 58185 Linköping, Sweden.
authors.forename: Örjan
authors.initials: Ö
authors.lastname: Smedby
authors.affiliation: Department of Electronics, University of Minho, 4800-058 Guimarães, Portugal.
authors.forename: Carlos A
authors.initials: CA
authors.lastname: Silva
authors.affiliation: Biomedical Imaging Group Rotterdam, Departments of Medical Informatics and Radiology, Erasmus MC, 3015 CN Rotterdam, Netherlands.
authors.forename: Henri A
authors.initials: HA
authors.lastname: Vrooman
authors.affiliation: Applied Physics Laboratory, Johns Hopkins University, Laurel, MD 20723, USA.
authors.forename: Saurabh
authors.initials: S
authors.lastname: Vyas
authors.affiliation: Center for Medical Imaging Science and Visualization, Linköping University, 58185 Linköping, Sweden; Department of Radiology and Department of Medical and Health Sciences, Linköping University, 58185 Linköping, Sweden.
authors.forename: Chunliang
authors.initials: C
authors.lastname: Wang
authors.affiliation: Computer Science and Engineering Department, State University of New York at Buffalo, Buffalo, NY 14260-2500, USA.
authors.forename: Liang
authors.initials: L
authors.lastname: Zhao
authors.affiliation: Department of Neurology, Brain Center Rudolf Magnus, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Geert Jan
authors.initials: GJ
authors.lastname: Biessels
authors.affiliation: Image Sciences Institute, University Medical Center Utrecht, 3584 CX Utrecht, Netherlands.
authors.forename: Max A
authors.initials: MA
authors.lastname: Viergever
mesh_terms: D000368:Aged; D000369:Aged, 80 and over; D000465:Algorithms; D001921:Brain / Q000033:anatomy & histology* / Q000502:physiology*; D002555:Cerebrospinal Fluid / Q000502:physiology; D016208:Databases, Factual; D005260:Female; D066128:Gray Matter / Q000033:anatomy & histology / Q000502:physiology; D006801:Humans; D007091:Image Processing, Computer-Assisted / Q000379:methods*; D008279:Magnetic Resonance Imaging / Q000379:methods*; D008297:Male; D009862:Online Systems; D012015:Reference Standards; D015203:Reproducibility of Results; D012984:Software; D066127:White Matter / Q000033:anatomy & histology / Q000502:physiology