ENIGMA’s simple seven: Recommendations to enhance the reproducibility of resting-state fMRI in traumatic brain injury
•rsfMRI has seen increased adoption recently, with 181 published studies to date.•7 recommendations to produce results that are reliable, harmonizable and reproducible.•Future directions include connectomics, lesion mapping and single-subject analyses. Resting state functional magnetic resonance ima...
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| Published in | NeuroImage clinical Vol. 42; p. 103585 |
|---|---|
| Main Authors | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
Netherlands
Elsevier Inc
01.01.2024
Elsevier |
| Subjects | |
| Online Access | Get full text |
| ISSN | 2213-1582 2213-1582 |
| DOI | 10.1016/j.nicl.2024.103585 |
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| Abstract | •rsfMRI has seen increased adoption recently, with 181 published studies to date.•7 recommendations to produce results that are reliable, harmonizable and reproducible.•Future directions include connectomics, lesion mapping and single-subject analyses.
Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across large-scale brain networks, with ever-increasing applications to the study of neurological disorders, such as traumatic brain injury (TBI). While rsfMRI holds unparalleled promise in systems neurosciences, its acquisition and analytical methodology across research groups is variable, resulting in a literature that is challenging to integrate and interpret. The focus of this narrative review is to address the primary methodological issues including investigator decision points in the application of rsfMRI to study the consequences of TBI. As part of the ENIGMA Brain Injury working group, we have collaborated to identify a minimum set of recommendations that are designed to produce results that are reliable, harmonizable, and reproducible for the TBI imaging research community. Part one of this review provides the results of a literature search of current rsfMRI studies of TBI, highlighting key design considerations and data processing pipelines. Part two outlines seven data acquisition, processing, and analysis recommendations with the goal of maximizing study reliability and between-site comparability, while preserving investigator autonomy. Part three summarizes new directions and opportunities for future rsfMRI studies in TBI patients. The goal is to galvanize the TBI community to gain consensus for a set of rigorous and reproducible methods, and to increase analytical transparency and data sharing to address the reproducibility crisis in the field. |
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| AbstractList | Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across large-scale brain networks, with ever-increasing applications to the study of neurological disorders, such as traumatic brain injury (TBI). While rsfMRI holds unparalleled promise in systems neurosciences, its acquisition and analytical methodology across research groups is variable, resulting in a literature that is challenging to integrate and interpret. The focus of this narrative review is to address the primary methodological issues including investigator decision points in the application of rsfMRI to study the consequences of TBI. As part of the ENIGMA Brain Injury working group, we have collaborated to identify a minimum set of recommendations that are designed to produce results that are reliable, harmonizable, and reproducible for the TBI imaging research community. Part one of this review provides the results of a literature search of current rsfMRI studies of TBI, highlighting key design considerations and data processing pipelines. Part two outlines seven data acquisition, processing, and analysis recommendations with the goal of maximizing study reliability and between-site comparability, while preserving investigator autonomy. Part three summarizes new directions and opportunities for future rsfMRI studies in TBI patients. The goal is to galvanize the TBI community to gain consensus for a set of rigorous and reproducible methods, and to increase analytical transparency and data sharing to address the reproducibility crisis in the field. Highlights•rsfMRI has seen increased adoption recently, with 181 published studies to date. •7 recommendations to produce results that are reliable, harmonizable and reproducible. •Future directions include connectomics, lesion mapping and single-subject analyses. Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across large-scale brain networks, with ever-increasing applications to the study of neurological disorders, such as traumatic brain injury (TBI). While rsfMRI holds unparalleled promise in systems neurosciences, its acquisition and analytical methodology across research groups is variable, resulting in a literature that is challenging to integrate and interpret. The focus of this narrative review is to address the primary methodological issues including investigator decision points in the application of rsfMRI to study the consequences of TBI. As part of the ENIGMA Brain Injury working group, we have collaborated to identify a minimum set of recommendations that are designed to produce results that are reliable, harmonizable, and reproducible for the TBI imaging research community. Part one of this review provides the results of a literature search of current rsfMRI studies of TBI, highlighting key design considerations and data processing pipelines. Part two outlines seven data acquisition, processing, and analysis recommendations with the goal of maximizing study reliability and between-site comparability, while preserving investigator autonomy. Part three summarizes new directions and opportunities for future rsfMRI studies in TBI patients. The goal is to galvanize the TBI community to gain consensus for a set of rigorous and reproducible methods, and to increase analytical transparency and data sharing to address the reproducibility crisis in the field.Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across large-scale brain networks, with ever-increasing applications to the study of neurological disorders, such as traumatic brain injury (TBI). While rsfMRI holds unparalleled promise in systems neurosciences, its acquisition and analytical methodology across research groups is variable, resulting in a literature that is challenging to integrate and interpret. The focus of this narrative review is to address the primary methodological issues including investigator decision points in the application of rsfMRI to study the consequences of TBI. As part of the ENIGMA Brain Injury working group, we have collaborated to identify a minimum set of recommendations that are designed to produce results that are reliable, harmonizable, and reproducible for the TBI imaging research community. Part one of this review provides the results of a literature search of current rsfMRI studies of TBI, highlighting key design considerations and data processing pipelines. Part two outlines seven data acquisition, processing, and analysis recommendations with the goal of maximizing study reliability and between-site comparability, while preserving investigator autonomy. Part three summarizes new directions and opportunities for future rsfMRI studies in TBI patients. The goal is to galvanize the TBI community to gain consensus for a set of rigorous and reproducible methods, and to increase analytical transparency and data sharing to address the reproducibility crisis in the field. • rsfMRI has seen increased adoption recently, with 181 published studies to date. • 7 recommendations to produce results that are reliable, harmonizable and reproducible. • Future directions include connectomics, lesion mapping and single-subject analyses. Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across large-scale brain networks, with ever-increasing applications to the study of neurological disorders, such as traumatic brain injury (TBI). While rsfMRI holds unparalleled promise in systems neurosciences, its acquisition and analytical methodology across research groups is variable, resulting in a literature that is challenging to integrate and interpret. The focus of this narrative review is to address the primary methodological issues including investigator decision points in the application of rsfMRI to study the consequences of TBI. As part of the ENIGMA Brain Injury working group, we have collaborated to identify a minimum set of recommendations that are designed to produce results that are reliable, harmonizable, and reproducible for the TBI imaging research community. Part one of this review provides the results of a literature search of current rsfMRI studies of TBI, highlighting key design considerations and data processing pipelines. Part two outlines seven data acquisition, processing, and analysis recommendations with the goal of maximizing study reliability and between-site comparability, while preserving investigator autonomy. Part three summarizes new directions and opportunities for future rsfMRI studies in TBI patients. The goal is to galvanize the TBI community to gain consensus for a set of rigorous and reproducible methods, and to increase analytical transparency and data sharing to address the reproducibility crisis in the field. •rsfMRI has seen increased adoption recently, with 181 published studies to date.•7 recommendations to produce results that are reliable, harmonizable and reproducible.•Future directions include connectomics, lesion mapping and single-subject analyses. Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across large-scale brain networks, with ever-increasing applications to the study of neurological disorders, such as traumatic brain injury (TBI). While rsfMRI holds unparalleled promise in systems neurosciences, its acquisition and analytical methodology across research groups is variable, resulting in a literature that is challenging to integrate and interpret. The focus of this narrative review is to address the primary methodological issues including investigator decision points in the application of rsfMRI to study the consequences of TBI. As part of the ENIGMA Brain Injury working group, we have collaborated to identify a minimum set of recommendations that are designed to produce results that are reliable, harmonizable, and reproducible for the TBI imaging research community. Part one of this review provides the results of a literature search of current rsfMRI studies of TBI, highlighting key design considerations and data processing pipelines. Part two outlines seven data acquisition, processing, and analysis recommendations with the goal of maximizing study reliability and between-site comparability, while preserving investigator autonomy. Part three summarizes new directions and opportunities for future rsfMRI studies in TBI patients. The goal is to galvanize the TBI community to gain consensus for a set of rigorous and reproducible methods, and to increase analytical transparency and data sharing to address the reproducibility crisis in the field. |
| ArticleNumber | 103585 |
| Author | Velez, Carmen Mullin, Hollie A.C. Razi, Adeel Livny, Abigail Olsen, Alexander Su, Matthew Dobryakova, Ekaterina Hodges, Cooper B. Monti, Martin M. Adamson, Maheen M. Caeyenberghs, Karen de Souza, Nicola L. Tate, David F. Disner, Seth G. Thompson, Paul M. Cwiek, Andrew Kim, Nicholas J. Morey, Rajendra A. Liebel, Spencer W. Mayer, Andrew R. Dennis, Emily L. Königs, Marsh Li, Lucia M. Bickart, Kevin Zielinski, Brandon A. Hillary, Frank G. Haswell, Courtney Breedlove, Katherine M. Imms, Phoebe Johnson, Paula K. Muir, Alexandra M. Wilde, Elisabeth A. Hoskinson, Kristen R. Irimia, Andrei Newsome, Mary R. Esopenko, Carrie Dominguez D, Juan F. |
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DeBakey VA Medical Center, Houston, TX, USA – sequence: 9 givenname: Ekaterina surname: Dobryakova fullname: Dobryakova, Ekaterina email: edobryakova@kesslerfoundation.org organization: Center for Traumatic Brain Injury, Kessler Foundation, East Hanover, NJ, USA – sequence: 10 givenname: Andrew surname: Cwiek fullname: Cwiek, Andrew email: apc5912@psu.edu organization: Department of Psychology, Penn State University, State College, PA, USA – sequence: 11 givenname: Hollie A.C. surname: Mullin fullname: Mullin, Hollie A.C. email: ham5439@psu.edu organization: Department of Psychology, Penn State University, State College, PA, USA – sequence: 12 givenname: Nicholas J. surname: Kim fullname: Kim, Nicholas J. email: kimnj@usc.edu organization: Ethel Percy Andrus Gerontology Center, Leonard Davis School of Gerontology, University of Southern California, Los Angeles, CA, USA – sequence: 13 givenname: Andrew R. surname: Mayer fullname: Mayer, Andrew R. email: amayer@mrn.org organization: Mind Research Network, Albuquerque, NM, USA – sequence: 14 givenname: Maheen M. surname: Adamson fullname: Adamson, Maheen M. email: madamson@stanford.edu organization: Women's Operational Military Exposure Network (WOMEN) & Rehabilitation Department, VA Palo Alto, Palo Alto, CA, USA – sequence: 15 givenname: Kevin surname: Bickart fullname: Bickart, Kevin email: KBickart@mednet.ucla.edu organization: UCLA Steve Tisch BrainSPORT Program, USA – sequence: 16 givenname: Katherine M. surname: Breedlove fullname: Breedlove, Katherine M. email: kbreedlove@bwh.harvard.edu organization: Center for Clinical Spectroscopy, Brigham and Women’s Hospital, Boston, MA, USA – sequence: 17 givenname: Emily L. surname: Dennis fullname: Dennis, Emily L. email: emily.dennis@hsc.utah.edu organization: TBI and Concussion Center, Department of Neurology, University of Utah, Salt Lake City, UT, USA – sequence: 18 givenname: Seth G. surname: Disner fullname: Disner, Seth G. email: disne014@umn.edu organization: Minneapolis VA Health Care System, Minneapolis, MN, USA – sequence: 19 givenname: Courtney surname: Haswell fullname: Haswell, Courtney email: courtney.haswell@duke.edu organization: Department of Psychiatry and Behavioral Sciences, Duke University, Durham, NC, USA – sequence: 20 givenname: Cooper B. surname: Hodges fullname: Hodges, Cooper B. email: cooper.hodges@hsc.utah.edu organization: TBI and Concussion Center, Department of Neurology, University of Utah, Salt Lake City, UT, USA – sequence: 21 givenname: Kristen R. surname: Hoskinson fullname: Hoskinson, Kristen R. email: Kristen.Hoskinson@nationwidechildrens.org organization: Center for Biobehavioral Health, The Abigail Wexner Research Institute at Nationwide Children's Hospital, Columbus, OH, USA – sequence: 22 givenname: Paula K. surname: Johnson fullname: Johnson, Paula K. email: paula.v.johnson@utah.edu organization: TBI and Concussion Center, Department of Neurology, University of Utah, Salt Lake City, UT, USA – sequence: 23 givenname: Marsh surname: Königs fullname: Königs, Marsh email: m.konigs@amsterdamumc.nl organization: Emma Children's Hospital, Amsterdam UMC, University of Amsterdam, Emma Neuroscience Group, The Netherlands – sequence: 24 givenname: Lucia M. surname: Li fullname: Li, Lucia M. email: lucia.li@imperial.ac.uk organization: C3NL, Imperial College London, United Kingdom – sequence: 25 givenname: Spencer W. surname: Liebel fullname: Liebel, Spencer W. email: Spencer.Liebel@hsc.utah.edu organization: TBI and Concussion Center, Department of Neurology, University of Utah, Salt Lake City, UT, USA – sequence: 26 givenname: Abigail surname: Livny fullname: Livny, Abigail email: abigail.livnyezer@gmail.com organization: Division of Diagnostic Imaging, Sheba Medical Center, Tel-Hashomer, Israel – sequence: 27 givenname: Rajendra A. surname: Morey fullname: Morey, Rajendra A. email: rajendra.morey@duke.edu organization: Department of Psychiatry and Behavioral Sciences, Duke University, Durham, NC, USA – sequence: 28 givenname: Alexandra M. surname: Muir fullname: Muir, Alexandra M. email: muira@usc.edu organization: Department of Psychology, Brigham Young University, Provo, UT, USA – sequence: 29 givenname: Alexander surname: Olsen fullname: Olsen, Alexander email: alexander.olsen@ntnu.no organization: Department of Psychology, Norwegian University of Science and Technology, Trondheim, Norway – sequence: 30 givenname: Adeel surname: Razi fullname: Razi, Adeel email: adeel.razi@monash.edu organization: Turner Institute for Brain and Mental Health, School of Psychological Sciences, Monash University, Clayton, VIC 3800, Australia – sequence: 31 givenname: Matthew surname: Su fullname: Su, Matthew email: ms161@rice.edu organization: H. Ben Taub Department of Physical Medicine and Rehabilitation, Baylor College of Medicine, Houston, TX, USA – sequence: 32 givenname: David F. surname: Tate fullname: Tate, David F. email: David.Tate@hsc.utah.edu organization: TBI and Concussion Center, Department of Neurology, University of Utah, Salt Lake City, UT, USA – sequence: 33 givenname: Carmen surname: Velez fullname: Velez, Carmen email: carmen.velez@hsc.utah.edu organization: TBI and Concussion Center, Department of Neurology, University of Utah, Salt Lake City, UT, USA – sequence: 34 givenname: Elisabeth A. surname: Wilde fullname: Wilde, Elisabeth A. email: elisabeth.wilde@hsc.utah.edu organization: H. Ben Taub Department of Physical Medicine and Rehabilitation, Baylor College of Medicine, Houston, TX, USA – sequence: 35 givenname: Brandon A. surname: Zielinski fullname: Zielinski, Brandon A. email: zielinskib@ufl.edu organization: Departments of Pediatrics, Neurology, and Neuroscience, University of Florida, Gainesville, FL, USA – sequence: 36 givenname: Paul M. surname: Thompson fullname: Thompson, Paul M. email: pthomp@usc.edu organization: Imaging Genetics Center, Mark and Mary Stevens Neuroimaging & Informatics Institute, University of Southern California, Marina del Rey, CA, USA – sequence: 37 givenname: Frank G. surname: Hillary fullname: Hillary, Frank G. email: fhillary@psu.edu organization: Department of Psychology, Penn State University, State College, PA, USA |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/38531165$$D View this record in MEDLINE/PubMed |
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| CitedBy_id | crossref_primary_10_1038_s41598_024_82089_0 crossref_primary_10_1038_s41386_024_01973_5 crossref_primary_10_3389_fneur_2024_1487796 |
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| Keywords | Functional connectivity Traumatic brain injury Resting state fMRI rsFC SC QC rsfMRI DVARS SNR tSNR WM CSF FLAIR BOLD TBI Lesions SWI ICA HALFpipe FOV GS ENIGMA OCD Reproducibility Functional MRI FA TMS FC FD TR EPI blood oxygen level dependent Independent Component Analysis Enhancing Neuro Imaging Genetics through Meta-Analysis Temporal Signal-to-Noise Ratio global signal field-of-view repetition time quality control Signal-to-noise ratio traumatic brain injury resting state functional connectivity resting state fMRI echo planar images obsessive compulsive disorder susceptibility weighted imaging cerebrospinal fluid Transcranial Magnetic Stimulation white matter temporal change in root-mean-square intensity Harmonized AnaLysis of Functional MRI pipeline frame-wise displacement functional connectivity Structural connectivity fluid attenuated inversion recovery fractional anisotropy |
| Language | English |
| License | This is an open access article under the CC BY license. Copyright © 2024 The Author(s). Published by Elsevier Inc. All rights reserved. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
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| Snippet | •rsfMRI has seen increased adoption recently, with 181 published studies to date.•7 recommendations to produce results that are reliable, harmonizable and... Highlights•rsfMRI has seen increased adoption recently, with 181 published studies to date. •7 recommendations to produce results that are reliable,... Resting state functional magnetic resonance imaging (rsfMRI) provides researchers and clinicians with a powerful tool to examine functional connectivity across... • rsfMRI has seen increased adoption recently, with 181 published studies to date. • 7 recommendations to produce results that are reliable, harmonizable and... |
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| SubjectTerms | Brain - diagnostic imaging Brain - physiopathology Brain Injuries, Traumatic - diagnostic imaging Brain Injuries, Traumatic - physiopathology Brain Mapping - methods Brain Mapping - standards Functional connectivity Functional MRI Humans Image Processing, Computer-Assisted - methods Image Processing, Computer-Assisted - standards Lesions Magnetic Resonance Imaging - methods Magnetic Resonance Imaging - standards Radiology Reproducibility Reproducibility of Results Rest - physiology Resting state fMRI Review Traumatic brain injury |
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| Title | ENIGMA’s simple seven: Recommendations to enhance the reproducibility of resting-state fMRI in traumatic brain injury |
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