ArticleScientific data2022
A large, curated, open-source stroke neuroimaging dataset to improve lesion segmentation algorithms.
Open access · goldAbstract readDataset
In one paragraph
Article in Scientific data, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers, 2 of them syntheses that pooled it.
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57citing papers in PubMed, 2 pooled it
19.9field-weighted citation impact, top 1% of its field
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Who cites it
57 citing papers in PubMed, 2 syntheses or guidelines pooled it, 140 citations in OpenAlex.
- Deep Learning Applications in Imaging of Acute Ischemic Stroke: A Systematic Review and Narrative Summary.Radiology · 2025Pooled it
- Exploring approaches to tackle cross-domain challenges in brain medical image segmentation: a systematic review.Frontiers in neuroscience · 2024Pooled it
- Comparative Study of Anatomical and Learned Features in AI Models for Structural Brain MRI.Research square · 2026Article
- Bioengineered Materials for Skull Base Reconstruction-Current Clinical Applications: Systematic Review and Meta-analysis.Journal of neurological surgery. Part B, Skull base · 2026Article
- A large-scale heterogeneous 3D magnetic resonance brain imaging dataset for self-supervised learning.Scientific data · 2026Article
- Adaptive multimodal fusion via Gated Parallel Mamba architecture for ultra-high-precision stroke lesion segmentation in medical imaging.PLOS digital health · 2026Article
- Estimating white matter hyperintensities volume in individuals with stroke using T1-weighted images.Neuroimage. Reports · 2026Article
- Optimizing the Approach to Calculating CST Lesion Load in Ischemic Stroke Patients for Understanding Motor Outcomes.Neurorehabilitation and neural repair · 2026Article
- White Matter Infarct Detection with Transformer and Auto-ML-Derived Models.Brain sciences · 2026Article
- Structural connectome changes as biomarkers of stroke recovery: a longitudinal 7T MRI study.BMC neuroscience · 2026Article
- Ten Recommendations for Improving Research on Stroke Motor Rehabilitation: A Unified Perspective.Restorative neurology and neuroscience · 2026Review
- Benchmarks and methods for 3D medical image retrieval.Scientific reports · 2026Article
- A generalizable foundation model for analysis of human brain MRI.Nature neuroscience · 2026Article
- Associations between contralesional neuroplasticity and motor impairment through deep learning-derived MRI regional brain age in chronic stroke (ENIGMA): a multicohort, retrospective, observational study.The Lancet. Digital health · 2026Observational
- LBMNet: a hybrid multi-scale CNN-Mamba framework for enhanced 3D stroke lesion segmentation in MRI.Frontiers in medicine · 2026Article
- Image-conditioned latent rectified flow models for 3D medical anomaly localisation.Frontiers in radiology · 2026Article
- Plug and Play Labeling Strategies for Boosting Small Brain Lesion Segmentation.Pattern recognition letters · 2026Article
- A Structured Review and Quantitative Profiling of Public Brain MRI Datasets for Foundation Model Development.Journal of imaging · 2025Review
- Collaborative AI for precision neurorehabilitation: a roadmap.Journal of neuroengineering and rehabilitation · 2025Review
- Mapping EEG Metrics to Human Affective and Cognitive Models: An Interdisciplinary Scoping Review from a Cognitive Neuroscience Perspective.Biomimetics (Basel, Switzerland) · 2025Review
Corrections and comments
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Authors and funding
63 authors at 20 institutions in 13 countries.
Sook-Lei Liew *Chan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA. sliew@usc.edu.ORCID 0000-0001-5935-4215
Bethany P Tavenner *Chan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.
Miranda R DonnellyChan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.
Artemis Zavaliangos-PetropuluMark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.
Jessica N JeongChan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.
Giuseppe BarisanoLaboratory of Neuroimaging, Mark and Mary Stevens Neuroimaging and Informatics Institutes, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.ORCID 0000-0001-5598-1369
Alexandre HuttonChan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.
Julia P SimonMark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.
Julia M JulianoNeuroscience Graduate Program, University of Southern California, Los Angeles, CA, USA.
Anisha SuriElectrical and Computer Engineering, Swanson School of Engineering, University of Pittsburgh, Pittsburgh, PA, USA.
Zhizhuo WangChan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.
Aisha AbdullahChan Division of Occupational Science and Occupational Therapy, University of Southern California, Los Angeles, CA, USA.
Jun KimMark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.
Tyler ArdMark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.ORCID 0000-0002-5123-1226
Nerisa BanajLaboratory of Neuropsychiatry, IRCCS Santa Lucia Foundation, Rome, Italy.
Michael R BorichDepartment of Rehabilitation Medicine, Emory University School of Medicine, Atlanta, GA, USA.
Lara A BoydDepartment of Physical Therapy & Djavad Mowafaghian Centre for Brain Health, University of British Columbia, Vancouver, British Columbia, Canada.ORCID 0000-0002-2828-4549
Amy BrodtmannFlorey Institute of Neuroscience and Mental Health, University of Melbourne, Melbourne, Victoria, Australia.
Cathrin M BuetefischDepartment of Rehabilitation Medicine, Emory University School of Medicine, Atlanta, GA, USA.ORCID 0000-0001-6473-7800
Lei CaoCenter for the Developing Brain, Child Mind Institute, New York, NY, USA.
Jessica M CassidyDepartment of Allied Health Sciences, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.ORCID 0000-0003-3469-0399
Valentina CiulloLaboratory of Neuropsychiatry, IRCCS Santa Lucia Foundation, Rome, Italy.
Adriana B ConfortoHospital das Clínicas, São Paulo University, Sao Paulo, SP, Brazil.
Steven C CramerDepartment of Neurology, University of California Los Angeles and California Rehabilitation Institute, Los Angeles, CA, USA.
Rosalia Dacosta-AguayoDepartment of Psychiatry and Clinical Psychobiology, University of Barcelona, Barcelona, Spain.
Ezequiel de la Rosaicometrix, Leuven, Belgium.
Martin DominFunctional Imaging Unit, Department of Diagnostic Radiology and Neuroradiology, University of Greifswald, Greifswald, Germany.ORCID 0000-0002-8620-966X
Adrienne N DulaDepartments of Neurology and Diagnostic Medicine, Dell Medical School at The University of Texas Austin, Austin, TX, USA.
Wuwei FengDepartment of Neurology, Duke University School of Medicine, Durham, NC, USA.
Alexandre R FrancoCenter for the Developing Brain, Child Mind Institute, New York, NY, USA.
Fatemeh GeranmayehDepartment of Brain Sciences, Imperial College London, London, UK.
Alexandre GramfortCenter for Data Science, Université Paris-Saclay, Inria, Palaiseau, France.ORCID 0000-0001-9791-4404
Chris M GregoryDepartment of Health Sciences & Research, Medical University of South Carolina, Charleston, SC, USA.
Colleen A HanlonCancer Biology, Wake Forest School of Medicine, Winston Salem, NC, USA.ORCID 0000-0002-3151-0279
Brenton G HordacreInnovation, Implementation and Clinical Translation (IIMPACT) in Health, Allied Health and Human Performance, University of South Australia, Adelaide, South Australia, Australia.
Steven A KautzDepartment of Health Sciences & Research, Medical University of South Carolina, Charleston, SC, USA.ORCID 0000-0003-3151-8235
Mohamed Salah KhlifThe Florey Institute of Neuroscience and Mental Health, Heidelberg, VIC, Australia.
Hosung KimMark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.
Jan S KirschkeNeuroradiology, School of Medicine, Technical University Munich, München, Germany.ORCID 0000-0002-7557-0003
Jingchun LiuDepartment of Radiology, Tianjin Medical University General Hospital, Tianjin, China.
Martin LotzeFunctional Imaging Unit, Department of Diagnostic Radiology and Neuroradiology, University of Greifswald, Greifswald, Germany.ORCID 0000-0003-4519-4956
Bradley J MacIntoshDepartment of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada.
Maria MataróDepartment of Clinical Psychology and Psychobiology, Institut de Neurociències, Universitat de Barcelona, Barcelona, Spain.
Feroze B MohamedJefferson Magnetic Resonance Imaging Center, Philadelphia, PA, USA.
Jan E NordvikCatoSenteret Rehabilitation Center, SON, Norway.
Gilsoon ParkLaboratory of Neuroimaging, Mark and Mary Stevens Neuroimaging and Informatics Institutes, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.
Amy PientaInter-university Consortium for Political and Social Research, University of Michigan, Ann Arbor, MI, USA.ORCID 0000-0003-1174-6118
Fabrizio PirasLaboratory of Neuropsychiatry, IRCCS Santa Lucia Foundation, Rome, Italy.ORCID 0000-0003-3566-5494
Shane M RedmanInter-university Consortium for Political and Social Research, University of Michigan, Ann Arbor, MI, USA.
Kate P RevillFacility for Education and Research in Neuroscience, Emory University, Atlanta, GA, USA.
Mauricio ReyesARTORG Center for Biomedical Engineering Research, University of Bern, Bern, Switzerland.
Andrew D RobertsonSchlegel-University of Waterloo Research Institute for Aging, University of Waterloo, Waterloo, Ontario, Canada.ORCID 0000-0002-9095-9877
Na Jin SeoDepartment of Health Sciences & Research, Medical University of South Carolina, Charleston, SC, USA.
Surjo R SoekadarClinical Neurotechnology Laboratory, Dept. of Psychiatry and Neurosciences (CCM), Charité - Universitätsmedizin Berlin, Berlin, Germany.
Gianfranco SpallettaLaboratory of Neuropsychiatry, IRCCS Santa Lucia Foundation, Rome, Italy.
Alison SweetInter-university Consortium for Political and Social Research, University of Michigan, Ann Arbor, MI, USA.
Maria TelenczukCenter for Data Science, Université Paris-Saclay, Inria, Palaiseau, France.ORCID 0000-0003-1311-1634
Gregory ThielmanDepartment of Physical Therapy and Neuroscience, Samson College of Health Sciences, St. Joseph's University, Philadelphia, PA, USA.
Lars T WestlyeDepartment of Psychology, University of Oslo, Oslo, Norway.ORCID 0000-0001-8644-956X
Carolee J WinsteinDivision of Biokinesiology and Physical Therapy of the Herman Ostrow School of Dentistry, University of Southern California, Los Angeles, CA, USA.
George F WittenbergGeriatrics Research, Education and Clinical Center, HERL, Department of Veterans Affairs, Pittsburgh, PA, USA.ORCID 0000-0001-5603-1197
Kristin A WongDepartment of Physical Medicine & Rehabilitation, Dell Medical School, University of Texas at Austin, Austin, TX, USA.
Chunshui YuDepartment of Radiology, Tianjin Medical University General Hospital, Tianjin, China.
University of Southern California · USEmory University · USFondazione Santa Lucia · ITMedical University of South Carolina · USUniversity of Michigan · USThe University of Texas at Austin · USTianjin Medical University General Hospital · CNUniversität Greifswald · DEUniversité Paris-Saclay · FRUniversity of Pittsburgh · USBaylor College of Medicine · USCharité - Universitätsmedizin Berlin · DEChild Mind Institute · USDuke University · USFlorey Institute of Neuroscience and Mental Health · AUHospital Israelita Albert Einstein · BRIcometrix (Belgium) · BEImaging Center · USImperial College London · GBNathan Kline Institute for Psychiatric Research · US
Funding
Treating Depression and Enhancing Locomotor Recovery Post-strokeP20GM109040 · NIGMS · MEDICAL UNIVERSITY OF SOUTH CAROLINA · PI KAUTZ, STEVEN A. · 2014 to 2024
$23.5MTechniques DevelopmentP2CHD086844 · NICHD · MEDICAL UNIVERSITY OF SOUTH CAROLINA · PI THOMPSON, AIKO · 2015 to 2024
$12.7MSupplement to Effects of global brain health on sensorimotor recovery after strokeR01NS115845 · NINDS · UNIVERSITY OF SOUTHERN CALIFORNIA · PI LIEW, SOOK-LEI · 2020 to 2024
$3.2MRole of distinctive cortical motor maps for hand muscles for recovery post strokeR01HD094731 · NICHD · MEDICAL UNIVERSITY OF SOUTH CAROLINA · PI SEO, NA JIN · 2020 to 2024
$3.1MCustomized cortical stimulation therapy in the rehabilitation of stroke patientsR01NS090677 · NINDS · EMORY UNIVERSITY · PI BUETEFISCH, CATHRIN M · 2015 to 2018
$3.0MOptimizing the Dose of Rehabilitation After StrokeR01HD065438 · NICHD · UNIVERSITY OF SOUTHERN CALIFORNIA · PI SCHWEIGHOFER, NICOLAS, WINSTEIN, CAROLEE J · 2011 to 2015
$1.9MBuilding a data science workforce to improve the reproducibility of rehabilitation researchR25HD105583 · NICHD · UNIVERSITY OF SOUTHERN CALIFORNIA · PI David Nelson Kennedy, Sook-Lei Liew · 2022 to 2026
$812kBig Data Neuroimaging to Predict Motor Behavior After StrokeK01HD091283 · NICHD · UNIVERSITY OF SOUTHERN CALIFORNIA · PI LIEW, SOOK-LEI · 2017 to 2020
$802kBrain Network Connectivity Measures in Early Stroke RehabilitationR00HD091375 · NICHD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI CASSIDY, JESSICA M · 2019 to 2021
$550kReorganizing motor cortex in stroke patient through Hebbian-type stimulationR21HD067906 · NICHD · EMORY UNIVERSITY · PI BUETEFISCH, CATHRIN M · 2011 to 2012
$464kCombined brain and peripheral nerve stimulation to enhance beneficial effects ofR01NS076348 · NINDS · FUNDACAO FACULDADE DE MEDICINA · PI CONFORTO, ADRIANA B · 2012 to 2015
$441kRR&D Research Career Scientist Award ApplicationIK6RX003075 · VA · RALPH H JOHNSON VA MEDICAL CENTER · PI KAUTZ, STEVEN A. · 2020 to 2025
–Medical Research Council MR/T001402/1Medical Research Council MR/X502959/1NICHD NIH HHS K01 HD091283NICHD NIH HHS P2C HD086844NICHD NIH HHS R00 HD091375NICHD NIH HHS R01 HD065438NICHD NIH HHS R01 HD094731NICHD NIH HHS R21 HD067906NICHD NIH HHS R25 HD105583NIGMS NIH HHS P20 GM109040NINDS NIH HHS R01 NS076348NINDS NIH HHS R01 NS090677NINDS NIH HHS R01 NS115845RRD VA I01 RX001935RRD VA I01 RX003066RRD VA IK6 RX003075Wellcome Trust
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.
Indexed as
BrainStrokeAlgorithmsHumansImage Processing, Computer-AssistedMagnetic Resonance ImagingNeuroimaging
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