Multi-site benchmark classification of major depressive disorder using machine learning on cortical and subcortical measures.


Journal

Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288

Informations de publication

Date de publication:
11 Jan 2024
Historique:
received: 23 01 2023
accepted: 19 11 2023
medline: 12 1 2024
pubmed: 12 1 2024
entrez: 11 1 2024
Statut: epublish

Résumé

Machine learning (ML) techniques have gained popularity in the neuroimaging field due to their potential for classifying neuropsychiatric disorders. However, the diagnostic predictive power of the existing algorithms has been limited by small sample sizes, lack of representativeness, data leakage, and/or overfitting. Here, we overcome these limitations with the largest multi-site sample size to date (N = 5365) to provide a generalizable ML classification benchmark of major depressive disorder (MDD) using shallow linear and non-linear models. Leveraging brain measures from standardized ENIGMA analysis pipelines in FreeSurfer, we were able to classify MDD versus healthy controls (HC) with a balanced accuracy of around 62%. But after harmonizing the data, e.g., using ComBat, the balanced accuracy dropped to approximately 52%. Accuracy results close to random chance levels were also observed in stratified groups according to age of onset, antidepressant use, number of episodes and sex. Future studies incorporating higher dimensional brain imaging/phenotype features, and/or using more advanced machine and deep learning methods may yield more encouraging prospects.

Identifiants

pubmed: 38212349
doi: 10.1038/s41598-023-47934-8
pii: 10.1038/s41598-023-47934-8
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

1084

Informations de copyright

© 2024. The Author(s).

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Auteurs

Vladimir Belov (V)

Laboratory of Systems Neuroscience and Imaging in Psychiatry (SNIP-Lab), Department of Psychiatry and Psychotherapy, University Medical Center Göttingen (UMG), Georg-August University, Von-Siebold-Str. 5, 37075, Göttingen, Germany.

Tracy Erwin-Grabner (T)

Laboratory of Systems Neuroscience and Imaging in Psychiatry (SNIP-Lab), Department of Psychiatry and Psychotherapy, University Medical Center Göttingen (UMG), Georg-August University, Von-Siebold-Str. 5, 37075, Göttingen, Germany.

Moji Aghajani (M)

Department of Psychiatry, Amsterdam UMC, Amsterdam Neuroscience, Amsterdam Public Health Research Institute, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.
Institute of Education and Child Studies, Section Forensic Family and Youth Care, Leiden University, Leiden, The Netherlands.

Andre Aleman (A)

Department of Biomedical Sciences of Cells and Systems, University Medical Center Groningen, University of Groningen, Groningen, The Netherlands.

Alyssa R Amod (AR)

Department of Psychiatry and Mental Health, University of Cape Town, Cape Town, South Africa.

Zeynep Basgoze (Z)

Department of Psychiatry and Behavioral Science, University of Minnesota Medical School, Minneapolis, MN, USA.

Francesco Benedetti (F)

Division of Neuroscience, IRCCS San Raffaele Scientific Institute, Milan, Italy.

Bianca Besteher (B)

Department of Psychiatry and Psychotherapy, Jena University Hospital, Jena, Germany.

Robin Bülow (R)

Institute for Radiology and Neuroradiology, University Medicine Greifswald, Greifswald, Germany.

Christopher R K Ching (CRK)

Imaging Genetics Center, Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Marina del Rey, CA, USA.

Colm G Connolly (CG)

Department of Biomedical Sciences, Florida State University, Tallahassee, FL, USA.

Kathryn Cullen (K)

Department of Psychiatry and Behavioral Science, University of Minnesota Medical School, Minneapolis, MN, USA.

Christopher G Davey (CG)

Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne, Parkville, VIC, Australia.

Danai Dima (D)

Department of Psychology, School of Arts and Social Sciences, City, University of London, London, UK.
Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK.

Annemiek Dols (A)

Department of Psychiatry, Amsterdam UMC, Amsterdam Neuroscience, Amsterdam Public Health Research Institute, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.

Jennifer W Evans (JW)

Experimental Therapeutics and Pathophysiology Branch, National Institute for Mental Health, National Institutes of Health, Bethesda, MD, USA.

Cynthia H Y Fu (CHY)

School of Psychology, University of East London, London, UK.
Centre for Affective Disorders, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK.

Ali Saffet Gonul (AS)

SoCAT Lab, Department of Psychiatry, School of Medicine, Ege University, Izmir, Turkey.

Ian H Gotlib (IH)

Department of Psychology, Stanford University, Stanford, CA, USA.

Hans J Grabe (HJ)

Department of Psychiatry and Psychotherapy, University Medicine Greifswald, Greifswald, Germany.

Nynke Groenewold (N)

Department of Psychiatry and Mental Health, University of Cape Town, Cape Town, South Africa.

J Paul Hamilton (JP)

Center for Social and Affective Neuroscience, Department of Biomedical and Clinical Sciences, Linköping University, Linköping, Sweden.
Center for Medical Imaging and Visualization, Linköping University, Linköping, Sweden.

Ben J Harrison (BJ)

Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne, Parkville, VIC, Australia.

Tiffany C Ho (TC)

Department of Psychiatry and Behavioral Sciences, Division of Child and Adolescent Psychiatry, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, USA.
Department of Psychology, University of California, Los Angeles, Los Angeles, CA, USA.

Benson Mwangi (B)

Louis A. Faillace, MD, Department of Psychiatry and Behavioral Sciences, The University of Texas Health Science Center at Houston, Houston, TX, USA.
Center Of Excellence On Mood Disorders, Louis A. Faillace, MD, Department of Psychiatry and Behavioral Sciences at McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA.

Natalia Jaworska (N)

Department of Psychiatry, McGill University, Montreal, QC, Canada.

Neda Jahanshad (N)

Imaging Genetics Center, Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Marina del Rey, CA, USA.

Bonnie Klimes-Dougan (B)

Department of Psychology, University of Minnesota, Minneapolis, MN, USA.

Sheri-Michelle Koopowitz (SM)

Department of Psychiatry and Mental Health, University of Cape Town, Cape Town, South Africa.

Thomas Lancaster (T)

Cardiff University Brain Research Imaging Center, Cardiff University, Cardiff, UK.
MRC Center for Neuropsychiatric Genetics and Genomics, Cardiff University, Cardiff, UK.

Meng Li (M)

Department of Psychiatry and Psychotherapy, Jena University Hospital, Jena, Germany.

David E J Linden (DEJ)

Cardiff University Brain Research Imaging Center, Cardiff University, Cardiff, UK.
MRC Center for Neuropsychiatric Genetics and Genomics, Cardiff University, Cardiff, UK.
Division of Psychological Medicine and Clinical Neurosciences, Cardiff University, Cardiff, UK.
School of Mental Health and Neuroscience, Faculty of Health, Medicine and Life Sciences, Maastricht University, Maastricht, The Netherlands.

Frank P MacMaster (FP)

Departments of Psychiatry and Pediatrics, University of Calgary, Calgary, AB, Canada.

David M A Mehler (DMA)

Cardiff University Brain Research Imaging Center, Cardiff University, Cardiff, UK.
MRC Center for Neuropsychiatric Genetics and Genomics, Cardiff University, Cardiff, UK.
Department of Psychiatry, Psychotherapy and Psychosomatics, Medical School, RWTH Aachen University, Aachen, Germany.

Elisa Melloni (E)

Division of Neuroscience, IRCCS San Raffaele Scientific Institute, Milan, Italy.

Bryon A Mueller (BA)

Department of Psychiatry and Behavioral Science, University of Minnesota Medical School, Minneapolis, MN, USA.

Amar Ojha (A)

Center for Neuroscience, University of Pittsburgh, Pittsburgh, PA, USA.
Center for Neural Basis of Cognition, University of Pittsburgh, Pittsburgh, PA, USA.

Mardien L Oudega (ML)

Department of Psychiatry, Amsterdam UMC, Amsterdam Neuroscience, Amsterdam Public Health Research Institute, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.

Brenda W J H Penninx (BWJH)

Department of Psychiatry, Amsterdam UMC, Amsterdam Neuroscience, Amsterdam Public Health Research Institute, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.

Sara Poletti (S)

Division of Neuroscience, IRCCS San Raffaele Scientific Institute, Milan, Italy.

Edith Pomarol-Clotet (E)

FIDMAG Germanes Hospitalàries Research Foundation, Centro de Investigación Biomédica en Red de Salud Mental (CIBERSAM), Barcelona, Catalonia, Spain.

Maria J Portella (MJ)

Sant Pau Mental Health Research Group, Institut de Recerca de L'Hospital de La Santa Creu I Sant Pau, Barcelona, Catalonia, Spain.

Elena Pozzi (E)

Centre for Youth Mental Health, The University of Melbourne, Parkville, VIC, Australia.
Orygen, Parkville, VIC, Australia.

Liesbeth Reneman (L)

Department of Radiology and Nuclear Medicine, Amsterdam University Medical Centers, Amsterdam, The Netherlands.

Matthew D Sacchet (MD)

Meditation Research Program, Department of Psychiatry, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.

Philipp G Sämann (PG)

Max Planck Institute of Psychiatry, Munich, Germany.

Anouk Schrantee (A)

Department of Radiology and Nuclear Medicine, Amsterdam University Medical Centers, Amsterdam, The Netherlands.

Kang Sim (K)

West Region, Institute of Mental Health, Singapore, Singapore.
Yong Loo Lin School of Medicine, National University of Singapore, Singapore, Singapore.
Lee Kong Chian School of Medicine, Nanyang Technological University, Singapore, Singapore.

Jair C Soares (JC)

Center Of Excellence On Mood Disorders, Louis A. Faillace, MD, Department of Psychiatry and Behavioral Sciences at McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA.

Dan J Stein (DJ)

SA MRC Research Unit on Risk and Resilience in Mental Disorders, Department of Psychiatry and Neuroscience Institute, University of Cape Town, Cape Town, South Africa.

Sophia I Thomopoulos (SI)

Imaging Genetics Center, Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Marina del Rey, CA, USA.

Aslihan Uyar-Demir (A)

SoCAT Lab, Department of Psychiatry, School of Medicine, Ege University, Izmir, Turkey.

Nic J A van der Wee (NJA)

Leiden Institute for Brain and Cognition, Leiden University Medical Center, Leiden, The Netherlands.

Steven J A van der Werff (SJA)

Leiden Institute for Brain and Cognition, Leiden University Medical Center, Leiden, The Netherlands.
Department of Psychiatry, Leiden University Medical Center, Leiden, The Netherlands.

Henry Völzke (H)

Institute for Community Medicine, University Medicine Greifswald, Greifswald, Germany.

Sarah Whittle (S)

Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne and Melbourne Health, Melbourne, VIC, Australia.

Katharina Wittfeld (K)

Department of Psychiatry and Psychotherapy, University Medicine Greifswald, Greifswald, Germany.
German Center for Neurodegenerative Diseases (DZNE), Site Rostock/ Greifswald, Greifswald, Germany.

Margaret J Wright (MJ)

Queensland Brain Institute, The University of Queensland, Brisbane, QLD, Australia.
Centre for Advanced Imaging, The University of Queensland, Brisbane, QLD, Australia.

Mon-Ju Wu (MJ)

Louis A. Faillace, MD, Department of Psychiatry and Behavioral Sciences, The University of Texas Health Science Center at Houston, Houston, TX, USA.
Center Of Excellence On Mood Disorders, Louis A. Faillace, MD, Department of Psychiatry and Behavioral Sciences at McGovern Medical School, The University of Texas Health Science Center at Houston, Houston, TX, USA.

Tony T Yang (TT)

Department of Psychiatry and Behavioral Sciences, Division of Child and Adolescent Psychiatry, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, USA.

Carlos Zarate (C)

Section on the Neurobiology and Treatment of Mood Disorders, National Institute of Mental Health, Bethesda, MD, USA.

Dick J Veltman (DJ)

Department of Psychiatry, Amsterdam UMC, Amsterdam Neuroscience, Amsterdam Public Health Research Institute, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands.

Lianne Schmaal (L)

Centre for Youth Mental Health, The University of Melbourne, Parkville, VIC, Australia.
Orygen, Parkville, VIC, Australia.

Paul M Thompson (PM)

Imaging Genetics Center, Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine, University of Southern California, Marina del Rey, CA, USA.

Roberto Goya-Maldonado (R)

Laboratory of Systems Neuroscience and Imaging in Psychiatry (SNIP-Lab), Department of Psychiatry and Psychotherapy, University Medical Center Göttingen (UMG), Georg-August University, Von-Siebold-Str. 5, 37075, Göttingen, Germany. roberto.goya@med.uni-goettingen.de.

Classifications MeSH