Please use this identifier to cite or link to this item: https://ahro.austin.org.au/austinjspui/handle/1/30438
Title: A large, curated, open-source stroke neuroimaging dataset to improve lesion segmentation algorithms.
Austin Authors: Liew, Sook-Lei;Lo, Bethany P;Donnelly, Miranda R;Zavaliangos-Petropulu, Artemis;Jeong, Jessica N;Barisano, Giuseppe;Hutton, Alexandre;Simon, Julia P;Juliano, Julia M;Suri, Anisha;Wang, Zhizhuo;Abdullah, Aisha;Kim, Jun;Ard, Tyler;Banaj, Nerisa;Borich, Michael R;Boyd, Lara A;Brodtmann, Amy ;Buetefisch, Cathrin M;Cao, Lei;Cassidy, Jessica M;Ciullo, Valentina;Conforto, Adriana B;Cramer, Steven C;Dacosta-Aguayo, Rosalia;de la Rosa, Ezequiel;Domin, Martin;Dula, Adrienne N;Feng, Wuwei;Franco, Alexandre R;Geranmayeh, Fatemeh;Gramfort, Alexandre;Gregory, Chris M;Hanlon, Colleen A;Hordacre, Brenton G;Kautz, Steven A;Khlif, Mohamed Salah;Kim, Hosung;Kirschke, Jan S;Liu, Jingchun;Lotze, Martin;MacIntosh, Bradley J;Mataró, Maria;Mohamed, Feroze B;Nordvik, Jan E;Park, Gilsoon;Pienta, Amy;Piras, Fabrizio;Redman, Shane M;Revill, Kate P;Reyes, Mauricio;Robertson, Andrew D;Seo, Na Jin;Soekadar, Surjo R;Spalletta, Gianfranco;Sweet, Alison;Telenczuk, Maria;Thielman, Gregory;Westlye, Lars T;Winstein, Carolee J;Wittenberg, George F;Wong, Kristin A;Yu, Chunshui
Affiliation: Chan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA..
Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA..
Chan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA..
Laboratory of Neuroimaging, Mark and Mary Stevens Neuroimaging and Informatics Institutes, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA..
Neuroscience Graduate Program, University of Southern California, Los Angeles, CA, USA..
Electrical and Computer Engineering, Swanson School of Engineering, University of Pittsburgh, Pittsburgh, PA, USA..
Laboratory of Neuropsychiatry, IRCCS Santa Lucia Foundation, Rome, Italy..
Department of Rehabilitation Medicine, Emory University School of Medicine, Atlanta, GA, USA..
Department of Physical Therapy & Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, British Columbia, Canada..
Florey Institute of Neuroscience and Mental Health, University of Melbourne, Melbourne, Victoria, Australia..
Department of Neurology, Emory University, Atlanta, GA, USA..
Center for the Developing Brain, Child Mind Institute, New York, NY, USA..
Department of Allied Health Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA..
Hospital das Clínicas, São Paulo University, Sao Paulo, SP, Brazil..
Hospital Israelita Albert Einstein, Sao Paulo, SP, Brazil..
Department of Neurology, University of California Los Angeles and California Rehabilitation Institute, Los Angeles, CA, USA..
Department of Psychiatry and Clinical Psychobiology, University of Barcelona, Barcelona, Spain..
icometrix, Leuven, Belgium.
Department of Computer Science, Technical University of Munich, Munich, Germany..
Functional Imaging Unit, Department of Diagnostic Radiology and Neuroradiology, University of Greifswald, Greifswald, Germany..
Departments of Neurology and Diagnostic Medicine, Dell Medical School at The University of Texas Austin, Austin, TX, USA..
Department of Neurology, Duke University School of Medicine, Durham, NC, USA..
Center for Biomedical Imaging and Neuromodulation, Nathan Kline Institute for Psychiatric Research, Orangeburg, NY, USA..
Department of Psychiatry, NYU Grossman School of Medicine, New York, NY, USA..
Department of Brain Sciences, Imperial College London, London, UK..
Center for Data Science, Université Paris-Saclay, Inria, Palaiseau, France..
Department of Health Sciences & Research, Medical University of South Carolina, Charleston, SC, USA..
Cancer Biology, Wake Forest School of Medicine, Winston Salem, NC, USA..
Innovation, Implementation and Clinical Translation (IIMPACT) in Health, Allied Health and Human Performance, University of South Australia, Adelaide, South Australia, Australia..
Ralph H Johnson VA Medical Center, Charleston, SC, USA..
The Florey Institute of Neuroscience and Mental Health
Neuroradiology, School of Medicine, Technical University Munich, München, Germany..
Department of Radiology, Tianjin Medical University General Hospital, Tianjin, China..
Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada..
Hurvitz Brain Sciences Program, Toronto, Ontario, Canada..
Department of Clinical Psychology and Psychobiology, Institut de Neurociències, Universitat de Barcelona, Barcelona, Spain..
Institut de Recerca Sant Joan de Déu, 08950, Esplugues de Llobregat, Spain..
Jefferson Magnetic Resonance Imaging Center, Philadelphia, PA, USA..
CatoSenteret Rehabilitation Center, SON, Norway..
Faculty of Health Sciences, Oslo Metropolitan University, Oslo, Norway..
Inter-university Consortium for Political and Social Research, University of Michigan, Ann Arbor, MI, USA..
Facility for Education and Research in Neuroscience, Emory University, Atlanta, GA, USA..
ARTORG Center for Biomedical Engineering Research, University of Bern, Bern, Switzerland..
Schlegel-University of Waterloo Research Institute for Aging, University of Waterloo, Waterloo, Ontario, Canada..
Canadian Partnership for Stroke Recovery, Sunnybrook Research Institute, Toronto, Ontario, Canada..
Department of Rehabilitation Sciences, Medical University of South Carolina, Charleston, SC, USA..
Clinical Neurotechnology Laboratory, Dept. of Psychiatry and Neurosciences (CCM), Charité - Universitätsmedizin Berlin, Berlin, Germany..
Menninger Department of Psychiatry and Behavioral Sciences, Division of Neuropsychiatry, Baylor College of Medicine, Houston, TX, USA..
Department of Physical Therapy and Neuroscience, Samson College of Health Sciences, St. Joseph's University, Philadelphia, PA, USA..
Department of Psychology, University of Oslo, Oslo, Norway..
NORMENT, Department of Mental Health and Addiction, Oslo University Hospital, Oslo, Norway..
Division of Biokinesiology and Physical Therapy of the Herman Ostrow School of Dentistry, University of Southern California, Los Angeles, CA, USA..
Department of Neurology, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA..
Geriatrics Research, Education and Clinical Center, HERL, Department of Veterans Affairs, Pittsburgh, PA, USA..
Departments of Neurology, PM&R, RNEL, CNBC, University of Pittsburgh, Pittsburgh, PA, USA..
Department of Physical Medicine & Rehabilitation, Dell Medical School, University of Texas at Austin, Austin, TX, USA..
Tianjin Key Laboratory of Functional Imaging, Tianjin Medical University General Hospital, Tianjin, China..
Issue Date: 16-Jun-2022
Date: 2022
Publication information: Scientific data 2022; 9(1): 320
Abstract: Accurate lesion segmentation is critical in stroke rehabilitation research for the quantification of lesion burden and accurate image processing. Current automated lesion segmentation methods for T1-weighted (T1w) MRIs, commonly used in stroke research, lack accuracy and reliability. Manual segmentation remains the gold standard, but it is time-consuming, subjective, and requires neuroanatomical expertise. We previously released an open-source dataset of stroke T1w MRIs and manually-segmented lesion masks (ATLAS v1.2, N = 304) to encourage the development of better algorithms. However, many methods developed with ATLAS v1.2 report low accuracy, are not publicly accessible or are improperly validated, limiting their utility to the field. Here we present ATLAS v2.0 (N = 1271), a larger dataset of T1w MRIs and manually segmented lesion masks that includes training (n = 655), test (hidden masks, n = 300), and generalizability (hidden MRIs and masks, n = 316) datasets. Algorithm development using this larger sample should lead to more robust solutions; the hidden datasets allow for unbiased performance evaluation via segmentation challenges. We anticipate that ATLAS v2.0 will lead to improved algorithms, facilitating large-scale stroke research.
URI: https://ahro.austin.org.au/austinjspui/handle/1/30438
DOI: 10.1038/s41597-022-01401-7
ORCID: 0000-0001-5935-4215
0000-0001-5598-1369
0000-0002-5123-1226
0000-0002-2828-4549
0000-0001-6473-7800
0000-0003-3469-0399
0000-0002-8620-966X
0000-0001-9791-4404
0000-0002-3151-0279
0000-0003-3151-8235
0000-0002-7557-0003
0000-0003-4519-4956
0000-0003-1174-6118
0000-0003-3566-5494
0000-0002-9095-9877
0000-0003-1311-1634
0000-0001-8644-956X
0000-0001-5603-1197
0000-0001-9466-2862
0000-0002-0096-434X
Journal: Scientific data
PubMed URL: 35710678
PubMed URL: https://pubmed.ncbi.nlm.nih.gov/35710678/
Type: Journal Article
Appears in Collections:Journal articles

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