Accurate lesion segmentation is critical for stroke rehabilitation research for both quantification of lesion burden and accurate image processing. Current automated lesion segmentation methods for T1-weighted MRIs lack the accuracy to be used reliably in research. Manual segmentation remains the gold standard, but it is time-consuming and requires significant neuroanatomical expertise. We previously released a large, open-source dataset of stroke T1-weighted MRIs and manually segmented lesion masks (ATLAS v1.2, N=304) to encourage the development of better segmentation algorithms. However, most methods developed with ATLAS v1.2 are not publicly accessible or have been overfitted to the data, resulting in algorithms with poor performance on new data. Here we present ATLAS v2.0 (n=955), a larger dataset of stroke T1-weighted MRIs and lesion masks that includes both training (public) and test (hidden) data. Algorithm development using this larger sample should lead to more robust solutions, and the hidden test data allows for unbiased performance evaluation via web-based challenges. We anticipate that ATLAS v2.0 will lead to the development of improved lesion segmentation algorithms, facilitating large-scale stroke research.

The dataset includes:

Release Download

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Release Notes

Release R1.2: N=304 (N=229 Preprocessed)

Release R2.0: N=955. Dataset now includes training and testing data. Data has been reorganized to BIDS derivatives format.

Data Descriptor Manuscript for R2.0

Click here to access the preprint version of the R2.0 data descriptor in medRxiv.

Data Descriptor Manuscript for R1.2

Click here to access the printed version of the data descriptor in Scientific Data.

Authors and Affiliations

Sook-Lei Liew1,2*, PhD, OTR/L, Bethany Lo1*, BS, Miranda R. Donnelly1, MSc, Artemis Zavaliangos-Petropulu2, PhD, Jessica N. Jeong1, BA, Giuseppe Barisano3,4, MD, Alexandre Hutton1, MEng, Julia P. Simon2, MSc, Julia M. Juliano4, BS, Anisha Suri5, MSc, Tyler Ard2, PhD, Nerisa Banaj6, PhD, Michael R. Borich7, PhD, Lara A. Boyd8, PhD, Amy Brodtmann9, PhD, MD, Cathrin M. Buetefisch10,7, PhD, MD, Lei Cao11, MSc, Jessica M. Cassidy12, PhD, DPT, Valentina Ciullo6, PhD, Adriana B. Conforto13,14, MD, PhD, Steven C. Cramer15, MD, Rosalia Dacosta-Aguayo16 PhD, Ezequiel de la Rosa17,18, MSc, Martin Domin19, MD, Adrienne N. Dula20, PhD, Wuwei Feng21, MD, Alexandre R. Franco11,22,23, PhD, Fatemeh  Geranmayeh24, PhD, Alexandre Gramfort25, PhD, Chris M. Gregory26, PhD, Colleen A. Hanlon27, PhD, Brenton G. Hordacre28, PhD, Steven A. Kautz26,29, PhD, Mohamed Salah Khlif30, PhD, Hosung Kim2, PhD, Jan S. Kirschke31, MD, Jingchun Liu32, MD, Martin Lotze19, MD, Bradley J. MacIntosh33,34, PhD, Maria Mataró35,36, PhD, Feroze B. Mohamed37, PhD, Jan E. Nordvik38,39, PhD, Gilsoon Park3, PhD, Amy Pienta40, PhD, Fabrizio Piras6, PhD, Shane M. Redman40, PhD, Kate P. Revill41, PhD, Mauricio Reyes42, PhD, Andrew D. Robertson43,44, PhD, Na Jin Seo45,26, PhD, Surjo R. Soekadar46, MD, Gianfranco Spalletta6, PhD, MD, Alison Sweet40, MPP, Maria Telenczuk25, PhD, Gregory Thielman47, EdD, Lars  T. Westlye48,49, PhD, Carolee J. Winstein50,51, PhD, George F. Wittenberg52,53, PhD, MD, Kristin A. Wong54, MD, Chunshui Yu32,55, MD.


1.     Chan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.

2.     Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.

3.     Laboratory of Neuroimaging, Mark and Mary Stevens Neuroimaging and Informatics Institutes, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.

4.     Neuroscience Graduate Program, University of Southern California, Los Angeles, CA, USA.

5.     Electrical and Computer Engineering, Swanson School of Engineering, University of Pittsburgh, Pittsburgh, PA, USA.

6.     Laboratory of Neuropsychiatry, IRCCS Santa Lucia Foundation, Rome, Italy.

7.     Department of Rehabilitation Medicine, Emory University School of Medicine, Atlanta, GA, USA.

8.     Department of Physical Therapy & Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, British Columbia, Canada.

9.     Florey Institute of Neuroscience and Mental Health, University of Melbourne, Melbourne, Victoria, Australia.

10.  Department of Neurology, Emory University , Atlanta, GA, USA.

11.  Center for the Developing Brain, Child Mind Institute, New York, NY, USA.

12.  Department of Allied Health Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.

13.  Hospital das Clínicas, São Paulo University, Sao Paulo, SP, Brazil.

14.  Hospital Israelita Albert Einstein, Sao Paulo, SP, Brazil.

15.  Department of Neurology, University of California Los Angeles and California Rehabilitation Institute, Los Angeles, CA, USA.

16.  Department of Psychiatry and Clinical Psychobiology, University of Barcelona, Barcelona, Spain.

17.  icometrix, Leuven, Belgium.

18.  Department of Computer Science, Technical University of Munich, Munich, Germany.

19.  Functional Imaging Unit, Department of Diagnostic Radiology and Neuroradiology, University of Greifswald, Greifswald, Germany.

20.  Departments of Neurology and Diagnostic Medicine, Dell Medical School at The University of Texas Austin, Austin, TX, USA.

21.  Department of Neurology, Duke University School of Medicine, Durham, NC, USA.

22.  Center for Biomedical Imaging and Neuromodulation, Nathan Kline Institute for Psychiatric Research, Orangeburg, NY, USA.

23.  Department of Psychiatry, NYU Grossman School of Medicine, New York, NY, USA.

24.  Department of Brain Sciences, Imperial College London, London, UK.

25.  Center for Data Science, Université Paris-Saclay, Inria, Palaiseau, France.

26.  Department of Health Sciences & Research, Medical University of South Carolina, Charleston, SC, USA.

27.  Cancer Biology, Wake Forest School of Medicine, Winston Salem, NC, USA.

28.  Innovation, Implementation and Clinical Translation (IIMPACT) in Health, Allied Health and Human Performance, University of South Australia, Adelaide, South Australia, Australia.

29.  Ralph H Johnson VA Medical Center, Charleston, SC, USA.

30.  The Florey Institute of Neuroscience and Mental Health, Heidelberg, VIC, Australia.

31.  Neuroradiology, School of Medicine, Technical University Munich, München, Germany.

32.  Department of Radiology, Tianjin Medical University General Hospital, Tianjin, China.

33.  Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada.

34.  Hurvitz Brain Sciences Program, Toronto, Ontario, Canada.

35.  Department of Clinical Psychology and Psychobiology, Institut de Neurociències, Universitat de Barcelona, Barcelona, Spain.

36.  Institut de Recerca Sant Joan de Déu, 08950 Esplugues de Llobregat, Spain.

37.  Jefferson Magnetic Resonance Imaging Center, Philadelphia, PA, USA.

38.  CatoSenteret Rehabilitation Center, SON, Norway.

39.  Faculty of Health Sciences, Oslo Metropolitan University, Oslo, Norway.

40.  Inter-university Consortium for Political and Social Research, University of Michigan, Ann Arbor, MI, USA.

41.  Facility for Education and Research in Neuroscience, Emory University, Atlanta, GA, USA.

42.  ARTORG Center for Biomedical Engineering Research, University of Bern, Switzerland.

43.  Schlegel-University of Waterloo Research Institute for Aging, University of Waterloo, Waterloo, Ontario, Canada.

44.  Canadian Partnership for Stroke Recovery, Sunnybrook Research Institute, Toronto, Ontario, Canada.

45.  Department of Rehabilitation Sciences, Medical University of South Carolina, Charleston, SC, USA.

46.  Clinical Neurotechnology Laboratory, Dept. of Psychiatry and Neurosciences (CCM), Charité - Universitätsmedizin Berlin, Berlin, Germany.

47.  Department of Physical Therapy and Neuroscience, University of the Sciences, Philadelphia, PA, USA.

48.  Department of Psychology, University of Oslo, Oslo, Norway.

49.  NORMENT, Department of Mental Health and Addiction, Oslo University Hospital, Oslo, Norway.

50.  Division of Biokinesiology and Physical Therapy of the Herman Ostrow School of Dentistry, University of Southern California, Los Angeles, CA, USA.

51.  Department of Neurology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.

52.  Geriatrics Research, Education and Clinical Center, HERL, Department of Veterans Affairs, Pittsburgh, PA, USA.

53.  Departments of Neurology, PM&R, RNEL, CNBC, University of Pittsburgh, Pittsburgh, PA, USA.

54.  Department of Physical Medicine & Rehabilitation, Dell Medical School, University of Texas at Austin, Austin, TX, USA.

55.  Tianjin Key Laboratory of Functional Imaging, Tianjin Medical University General Hospital, Tianjin, China.

Corresponding author: Sook-Lei Liew (sliew@usc.edu)

*Denotes equal contributions


The archiving of this dataset was specifically supported by the NIH-funded Center for Large Data Research and Data Sharing in Rehabilitation (CLDR) under a Category 2 Pilot Grant (P2CHD06570) and NIH R01 NS115845 and NIH K01 HD091283.