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Research ArticleSpine
Open Access

Fully Automatic Method for Reliable Spinal Cord Compartment Segmentation in Multiple Sclerosis

C. Tsagkas, A. Horvath-Huck, T. Haas, M. Amann, A. Todea, A. Altermatt, J. Müller, A. Cagol, M. Leimbacher, M. Barakovic, M. Weigel, S. Pezold, T. Sprenger, L. Kappos, O. Bieri, C. Granziera, P. Cattin and K. Parmar
American Journal of Neuroradiology February 2023, 44 (2) 218-227; DOI: https://doi.org/10.3174/ajnr.A7756
C. Tsagkas
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
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  • ORCID record for C. Tsagkas
A. Horvath-Huck
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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T. Haas
cDepartment of Medicine and Biomedical Engineering; Division of Radiological Physics (T.H., M.W., O.B.)
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  • ORCID record for T. Haas
M. Amann
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
gMedical Image Analysis Center AG (M.A., A.A.), Basel, Switzerland
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A. Todea
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
dDepartment of Radiology; Department of Neuroradiology (A.T.), Clinic for Radiology & Nuclear Medicine; and Research Center for Clinical Neuroimmunology
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A. Altermatt
gMedical Image Analysis Center AG (M.A., A.A.), Basel, Switzerland
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  • ORCID record for A. Altermatt
J. Müller
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
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A. Cagol
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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M. Leimbacher
hMedical Faculty (M.L., P.C.), University of Basel, Basel, Switzerland
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M. Barakovic
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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M. Weigel
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
cDepartment of Medicine and Biomedical Engineering; Division of Radiological Physics (T.H., M.W., O.B.)
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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S. Pezold
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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T. Sprenger
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
iDepartment of Neurology (T.S.), DKD Helios Klinik Wiesbaden, Wiesbaden, Germany
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L. Kappos
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
eNeuroscience Basel (RC2NB) (L.K.), Departments of Medicine, Clinical Research, and Biomedical Imaging, University Hospital Basel and University of Basel, Basel, Switzerland
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O. Bieri
cDepartment of Medicine and Biomedical Engineering; Division of Radiological Physics (T.H., M.W., O.B.)
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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C. Granziera
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
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P. Cattin
fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
hMedical Faculty (M.L., P.C.), University of Basel, Basel, Switzerland
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K. Parmar
aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
jReha Rheinfelden (K.P.), Rheinfelden, Switzerland
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Article Information

vol. 44 no. 2 218-227
DOI 
https://doi.org/10.3174/ajnr.A7756
PubMed 
36702504

Published By 
American Journal of Neuroradiology
Print ISSN 
0195-6108
Online ISSN 
1936-959X
History 
  • Received January 5, 2022
  • Accepted after revision December 5, 2022
  • Published online February 1, 2023.

Article Versions

  • Latest version (January 26, 2023 - 07:57).
  • You are viewing the most recent version of this article.
Copyright & Usage 
© 2023 by American Journal of Neuroradiology Indicates open access to non-subscribers at www.ajnr.org

Author Information

  1. C. Tsagkasa,b,
  2. A. Horvath-Huckf,
  3. T. Haasc,
  4. M. Amanna,f,g,
  5. A. Todeab,d,
  6. A. Altermattg,
  7. J. Müllera,b,
  8. A. Cagolb,f,
  9. M. Leimbacherh,
  10. M. Barakovicb,f,
  11. M. Weigela,b,c,f,
  12. S. Pezoldf,
  13. T. Sprengera,i,
  14. L. Kapposa,e,
  15. O. Bieric,f,
  16. C. Granzieraa,b,f,
  17. P. Cattinf,h and
  18. K. Parmara,b,j
  1. aFrom the Neurologic Clinic and Policlinic, Departments of Medicine (C.T., M.A., J.M., M.W., T.S., L.K., C.G., K.P.), Clinical Research and Biomedical Engineering
  2. bTranslational Imaging in Neurology Basel (C.T., A.T., J.M., A.C., M.B., M.W., C.G., K.P.)
  3. cDepartment of Medicine and Biomedical Engineering; Division of Radiological Physics (T.H., M.W., O.B.)
  4. dDepartment of Radiology; Department of Neuroradiology (A.T.), Clinic for Radiology & Nuclear Medicine; and Research Center for Clinical Neuroimmunology
  5. eNeuroscience Basel (RC2NB) (L.K.), Departments of Medicine, Clinical Research, and Biomedical Imaging, University Hospital Basel and University of Basel, Basel, Switzerland
  6. fDepartment of Biomedical Engineering (A.H.-H., M.A., A.C., M.B., M.W., S.P., O.B., C.G., P.C.), University of Basel, Allschwil, Switzerland
  7. gMedical Image Analysis Center AG (M.A., A.A.), Basel, Switzerland
  8. hMedical Faculty (M.L., P.C.), University of Basel, Basel, Switzerland
  9. iDepartment of Neurology (T.S.), DKD Helios Klinik Wiesbaden, Wiesbaden, Germany
  10. jReha Rheinfelden (K.P.), Rheinfelden, Switzerland
  1. Please address correspondence to Charidimos Tsagkas, MD, MD-PhD, Neurologic Clinic and Policlinic, Departments of Medicine, Clinical Research and Biomedical Engineering, University Hospital Basel and University of Basel, Petersgraben 4, CH-4031 Basel, Switzerland; e-mail: charidimos.tsagkas{at}usb.ch
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Funding

  • University of Basel

    3MS1020; 3MS1049
  • Horizon 2020 Framework Programme

    E!113682
  • Stiftung zur Förderung der gastroenterologischen und allgemeinen klinischen Forschung

  • Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung

    320030_156860; PP00P3_176984
  • Schweizerische Multiple Sklerose Gesellschaft

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    Multiple Sclerosis and Related Disorders 2023 71
  • Feasibility of interleaved multislice averaged magnetization inversion‐recovery acquisitions of the spinal cord
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    Magnetic Resonance in Medicine 2024
  • Methods for Evaluating Gray Matter Contour Similarity in Transverse Slices of the Mammalian Spinal Cord
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    Journal of Evolutionary Biochemistry and Physiology 2025 61 2
  • Neurodegeneration and Demyelination in the Multiple Sclerosis Spinal Cord
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    Neurology 2025 104 7
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C. Tsagkas, A. Horvath-Huck, T. Haas, M. Amann, A. Todea, A. Altermatt, J. Müller, A. Cagol, M. Leimbacher, M. Barakovic, M. Weigel, S. Pezold, T. Sprenger, L. Kappos, O. Bieri, C. Granziera, P. Cattin, K. Parmar
Fully Automatic Method for Reliable Spinal Cord Compartment Segmentation in Multiple Sclerosis
American Journal of Neuroradiology Feb 2023, 44 (2) 218-227; DOI: 10.3174/ajnr.A7756

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Automatic Spinal Cord Segmentation in MS
C. Tsagkas, A. Horvath-Huck, T. Haas, M. Amann, A. Todea, A. Altermatt, J. Müller, A. Cagol, M. Leimbacher, M. Barakovic, M. Weigel, S. Pezold, T. Sprenger, L. Kappos, O. Bieri, C. Granziera, P. Cattin, K. Parmar
American Journal of Neuroradiology Feb 2023, 44 (2) 218-227; DOI: 10.3174/ajnr.A7756
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  • EPISeg: Automated segmentation of the spinal cord on echo planar images using open-access multi-center data
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This article has been cited by the following articles in journals that are participating in Crossref Cited-by Linking.

  • Longitudinal assessment of cervical spinal cord compartments in multiple sclerosis
    Charidimos Tsagkas, Antal Huck-Horvath, Alessandro Cagol, Tanja Haas, Michael Amann, Muhamed Barakovic, Esther Ruberte, Lester Melie-Garcia, Matthias Weigel, Simon Pezold, Regina Schlaeger, Jens Kuhle, Till Sprenger, Ludwig Kappos, Oliver Bieri, Philippe Cattin, Cristina Granziera, Katrin Parmar
    Multiple Sclerosis and Related Disorders 2023 71
  • Feasibility of interleaved multislice averaged magnetization inversion‐recovery acquisitions of the spinal cord
    Matthias Weigel, Zarko Celicanin, Tanja Haas, Oliver Bieri
    Magnetic Resonance in Medicine 2024
  • Methods for Evaluating Gray Matter Contour Similarity in Transverse Slices of the Mammalian Spinal Cord
    V. A. Lyakhovetskii, P. Yu. Shkorbatova, A. A. Veshchitskii, N. S. Merkulyeva
    Journal of Evolutionary Biochemistry and Physiology 2025 61 2
  • Neurodegeneration and Demyelination in the Multiple Sclerosis Spinal Cord
    Kedar R. Mahajan, Danielle Herman, Yufan Zheng, Caroline Androjna, Bhaskar Thoomukuntla, Daniel Ontaneda, Kunio Nakamura, Bruce D. Trapp
    Neurology 2025 104 7

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