Generic acquisition protocol for quantitative MRI of the spinal cord

Julien Cohen-Adad; Eva Alonso-Ortiz; Mihael Abramovic; Carina Arneitz; Nicole Atcheson; Laura Barlow; Robert L. Barry; Markus Barth; Marco Battiston; Christian Büchel; Matthew Budde; Virginie Callot; Anna J.E. Combes; Benjamin De Leener; Maxime Descoteaux; Paulo Loureiro de Sousa; Marek Dostál; Julien Doyon; Adam Dvorak; Falk Eippert; Karla R. Epperson; Kevin S. Epperson; Patrick Freund; Jürgen Finsterbusch; Alexandru Foias; Michela Fratini; Issei Fukunaga; Claudia A.M.Gandini Wheeler-Kingshott; Giancarlo Germani; Guillaume Gilbert; Federico Giove; Charley Gros; Francesco Grussu; Akifumi Hagiwara; Pierre Gilles Henry; Tomáš Horák; Masaaki Hori; James Joers; Kouhei Kamiya; Haleh Karbasforoushan; Miloš Keřkovský; Ali Khatibi; Joo Won Kim; Nawal Kinany; Hagen Kitzler; Shannon Kolind; Yazhuo Kong; Petr Kudlička; Paul Kuntke; Nyoman D. Kurniawan; Slawomir Kusmia; René Labounek; Maria Marcella Laganà; Cornelia Laule; Christine S. Law; Christophe Lenglet; Tobias Leutritz; Yaou Liu; Sara Llufriu; Sean Mackey; Eloy Martinez-Heras; Loan Mattera; Igor Nestrasil; Kristin P. O’Grady; Nico Papinutto; Daniel Papp; Deborah Pareto; Todd B. Parrish; Anna Pichiecchio; Ferran Prados; Àlex Rovira; Marc J. Ruitenberg; Rebecca S. Samson; Giovanni Savini; Maryam Seif; Alan C. Seifert; Alex K. Smith; Seth A. Smith; Zachary A. Smith; Elisabeth Solana; Yuichi Suzuki; George Tackley; Alexandra Tinnermann; Jan Valošek; Dimitri Van De Ville; Marios C. Yiannakas; Kenneth A. Weber; Nikolaus Weiskopf; Richard G. Wise; Patrik O. Wyss; Junqian Xu

doi:10.1038/s41596-021-00588-0

Generic acquisition protocol for quantitative MRI of the spinal cord

Julien Cohen-Adad, Eva Alonso-Ortiz, Mihael Abramovic, Carina Arneitz, Nicole Atcheson, Laura Barlow, Robert L. Barry, Markus Barth, Marco Battiston, Christian Büchel, Matthew Budde, Virginie Callot, Anna J.E. Combes, Benjamin De Leener, Maxime Descoteaux, Paulo Loureiro de Sousa, Marek Dostál, Julien Doyon, Adam Dvorak, Falk EippertKarla R. Epperson, Kevin S. Epperson, Patrick Freund, Jürgen Finsterbusch, Alexandru Foias, Michela Fratini, Issei Fukunaga, Claudia A.M.Gandini Wheeler-Kingshott, Giancarlo Germani, Guillaume Gilbert, Federico Giove, Charley Gros, Francesco Grussu, Akifumi Hagiwara, Pierre Gilles Henry, Tomáš Horák, Masaaki Hori, James Joers, Kouhei Kamiya, Haleh Karbasforoushan, Miloš Keřkovský, Ali Khatibi, Joo Won Kim, Nawal Kinany, Hagen Kitzler, Shannon Kolind, Yazhuo Kong, Petr Kudlička, Paul Kuntke, Nyoman D. Kurniawan, Slawomir Kusmia, René Labounek, Maria Marcella Laganà, Cornelia Laule, Christine S. Law, Christophe Lenglet, Tobias Leutritz, Yaou Liu, Sara Llufriu, Sean Mackey, Eloy Martinez-Heras, Loan Mattera, Igor Nestrasil, Kristin P. O’Grady, Nico Papinutto, Daniel Papp, Deborah Pareto, Todd B. Parrish, Anna Pichiecchio, Ferran Prados, Àlex Rovira, Marc J. Ruitenberg, Rebecca S. Samson, Giovanni Savini, Maryam Seif, Alan C. Seifert, Alex K. Smith, Seth A. Smith, Zachary A. Smith, Elisabeth Solana, Yuichi Suzuki, George Tackley, Alexandra Tinnermann, Jan Valošek, Dimitri Van De Ville, Marios C. Yiannakas, Kenneth A. Weber, Nikolaus Weiskopf, Richard G. Wise, Patrik O. Wyss, Junqian Xu

Research output: Contribution to journal › Review article › peer-review

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Abstract

Quantitative spinal cord (SC) magnetic resonance imaging (MRI) presents many challenges, including a lack of standardized imaging protocols. Here we present a prospectively harmonized quantitative MRI protocol, which we refer to as the spine generic protocol, for users of 3T MRI systems from the three main manufacturers: GE, Philips and Siemens. The protocol provides guidance for assessing SC macrostructural and microstructural integrity: T1-weighted and T2-weighted imaging for SC cross-sectional area computation, multi-echo gradient echo for gray matter cross-sectional area, and magnetization transfer and diffusion weighted imaging for assessing white matter microstructure. In a companion paper from the same authors, the spine generic protocol was used to acquire data across 42 centers in 260 healthy subjects. The key details of the spine generic protocol are also available in an open-access document that can be found at https://github.com/spine-generic/protocols. The protocol will serve as a starting point for researchers and clinicians implementing new SC imaging initiatives so that, in the future, inclusion of the SC in neuroimaging protocols will be more common. The protocol could be implemented by any trained MR technician or by a researcher/clinician familiar with MRI acquisition.

Original language	English (US)
Pages (from-to)	4611-4632
Number of pages	22
Journal	Nature Protocols
Volume	16
Issue number	10
DOIs	https://doi.org/10.1038/s41596-021-00588-0
State	Published - Oct 2021

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Publisher Copyright:
© 2021, The Author(s), under exclusive licence to Springer Nature Limited.

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Cohen-Adad, J., Alonso-Ortiz, E., Abramovic, M., Arneitz, C., Atcheson, N., Barlow, L., Barry, R. L., Barth, M., Battiston, M., Büchel, C., Budde, M., Callot, V., Combes, A. J. E., De Leener, B., Descoteaux, M., de Sousa, P. L., Dostál, M., Doyon, J., Dvorak, A., ... Xu, J. (2021). Generic acquisition protocol for quantitative MRI of the spinal cord. Nature Protocols, 16(10), 4611-4632. https://doi.org/10.1038/s41596-021-00588-0

Cohen-Adad, J, Alonso-Ortiz, E, Abramovic, M, Arneitz, C, Atcheson, N, Barlow, L, Barry, RL, Barth, M, Battiston, M, Büchel, C, Budde, M, Callot, V, Combes, AJE, De Leener, B, Descoteaux, M, de Sousa, PL, Dostál, M, Doyon, J, Dvorak, A, Eippert, F, Epperson, KR, Epperson, KS, Freund, P, Finsterbusch, J, Foias, A, Fratini, M, Fukunaga, I, Wheeler-Kingshott, CAMG, Germani, G, Gilbert, G, Giove, F, Gros, C, Grussu, F, Hagiwara, A, Henry, PG, Horák, T, Hori, M, Joers, J, Kamiya, K, Karbasforoushan, H, Keřkovský, M, Khatibi, A, Kim, JW, Kinany, N, Kitzler, H, Kolind, S, Kong, Y, Kudlička, P, Kuntke, P, Kurniawan, ND, Kusmia, S, Labounek, R, Laganà, MM, Laule, C, Law, CS, Lenglet, C, Leutritz, T, Liu, Y, Llufriu, S, Mackey, S, Martinez-Heras, E, Mattera, L, Nestrasil, I, O’Grady, KP, Papinutto, N, Papp, D, Pareto, D, Parrish, TB, Pichiecchio, A, Prados, F, Rovira, À, Ruitenberg, MJ, Samson, RS, Savini, G, Seif, M, Seifert, AC, Smith, AK, Smith, SA, Smith, ZA, Solana, E, Suzuki, Y, Tackley, G, Tinnermann, A, Valošek, J, Van De Ville, D, Yiannakas, MC, Weber, KA, Weiskopf, N, Wise, RG, Wyss, PO & Xu, J 2021, 'Generic acquisition protocol for quantitative MRI of the spinal cord', Nature Protocols, vol. 16, no. 10, pp. 4611-4632. https://doi.org/10.1038/s41596-021-00588-0

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AU - Finsterbusch, Jürgen

AU - Foias, Alexandru

AU - Fratini, Michela

AU - Fukunaga, Issei

AU - Wheeler-Kingshott, Claudia A.M.Gandini

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AU - Joers, James

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AU - Karbasforoushan, Haleh

AU - Keřkovský, Miloš

AU - Khatibi, Ali

AU - Kim, Joo Won

AU - Kinany, Nawal

AU - Kitzler, Hagen

AU - Kolind, Shannon

AU - Kong, Yazhuo

AU - Kudlička, Petr

AU - Kuntke, Paul

AU - Kurniawan, Nyoman D.

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AU - Leutritz, Tobias

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AU - Llufriu, Sara

AU - Mackey, Sean

AU - Martinez-Heras, Eloy

AU - Mattera, Loan

AU - Nestrasil, Igor

AU - O’Grady, Kristin P.

AU - Papinutto, Nico

AU - Papp, Daniel

AU - Pareto, Deborah

AU - Parrish, Todd B.

AU - Pichiecchio, Anna

AU - Prados, Ferran

AU - Rovira, Àlex

AU - Ruitenberg, Marc J.

AU - Samson, Rebecca S.

AU - Savini, Giovanni

AU - Seif, Maryam

AU - Seifert, Alan C.

AU - Smith, Alex K.

AU - Smith, Seth A.

AU - Smith, Zachary A.

AU - Solana, Elisabeth

AU - Suzuki, Yuichi

AU - Tackley, George

AU - Tinnermann, Alexandra

AU - Valošek, Jan

AU - Van De Ville, Dimitri

AU - Yiannakas, Marios C.

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AU - Wyss, Patrik O.

AU - Xu, Junqian

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N2 - Quantitative spinal cord (SC) magnetic resonance imaging (MRI) presents many challenges, including a lack of standardized imaging protocols. Here we present a prospectively harmonized quantitative MRI protocol, which we refer to as the spine generic protocol, for users of 3T MRI systems from the three main manufacturers: GE, Philips and Siemens. The protocol provides guidance for assessing SC macrostructural and microstructural integrity: T1-weighted and T2-weighted imaging for SC cross-sectional area computation, multi-echo gradient echo for gray matter cross-sectional area, and magnetization transfer and diffusion weighted imaging for assessing white matter microstructure. In a companion paper from the same authors, the spine generic protocol was used to acquire data across 42 centers in 260 healthy subjects. The key details of the spine generic protocol are also available in an open-access document that can be found at https://github.com/spine-generic/protocols. The protocol will serve as a starting point for researchers and clinicians implementing new SC imaging initiatives so that, in the future, inclusion of the SC in neuroimaging protocols will be more common. The protocol could be implemented by any trained MR technician or by a researcher/clinician familiar with MRI acquisition.

AB - Quantitative spinal cord (SC) magnetic resonance imaging (MRI) presents many challenges, including a lack of standardized imaging protocols. Here we present a prospectively harmonized quantitative MRI protocol, which we refer to as the spine generic protocol, for users of 3T MRI systems from the three main manufacturers: GE, Philips and Siemens. The protocol provides guidance for assessing SC macrostructural and microstructural integrity: T1-weighted and T2-weighted imaging for SC cross-sectional area computation, multi-echo gradient echo for gray matter cross-sectional area, and magnetization transfer and diffusion weighted imaging for assessing white matter microstructure. In a companion paper from the same authors, the spine generic protocol was used to acquire data across 42 centers in 260 healthy subjects. The key details of the spine generic protocol are also available in an open-access document that can be found at https://github.com/spine-generic/protocols. The protocol will serve as a starting point for researchers and clinicians implementing new SC imaging initiatives so that, in the future, inclusion of the SC in neuroimaging protocols will be more common. The protocol could be implemented by any trained MR technician or by a researcher/clinician familiar with MRI acquisition.

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DO - 10.1038/s41596-021-00588-0

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VL - 16

SP - 4611

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JO - Nature Protocols

JF - Nature Protocols

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ER -

Generic acquisition protocol for quantitative MRI of the spinal cord

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