Literature DB >> 36068231

ASL-BIDS, the brain imaging data structure extension for arterial spin labeling.

Patricia Clement1, Marco Castellaro2, Thomas W Okell3, David L Thomas4,5, Pieter Vandemaele6, Sara Elgayar7, Aaron Oliver-Taylor8, Thomas Kirk9,10, Joseph G Woods3,11, Sjoerd B Vos5,12, Joost P A Kuijer13, Eric Achten6, Matthias J P van Osch14, John A Detre15,16, Hanzhang Lu17, David C Alsop18, Michael A Chappell3,10,19,20, Luis Hernandez-Garcia21, Jan Petr13,22, Henk J M M Mutsaerts6,13.   

Abstract

Arterial spin labeling (ASL) is a non-invasive MRI technique that allows for quantitative measurement of cerebral perfusion. Incomplete or inaccurate reporting of acquisition parameters complicates quantification, analysis, and sharing of ASL data, particularly for studies across multiple sites, platforms, and ASL methods. There is a strong need for standardization of ASL data storage, including acquisition metadata. Recently, ASL-BIDS, the BIDS extension for ASL, was developed and released in BIDS 1.5.0. This manuscript provides an overview of the development and design choices of this first ASL-BIDS extension, which is mainly aimed at clinical ASL applications. Discussed are the structure of the ASL data, focussing on storage order of the ASL time series and implementation of calibration approaches, unit scaling, ASL-related BIDS fields, and storage of the labeling plane information. Additionally, an overview of ASL-BIDS compatible conversion and ASL analysis software and ASL example datasets in BIDS format is provided. We anticipate that large-scale adoption of ASL-BIDS will improve the reproducibility of ASL research.
© 2022. The Author(s).

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Year:  2022        PMID: 36068231      PMCID: PMC9448788          DOI: 10.1038/s41597-022-01615-9

Source DB:  PubMed          Journal:  Sci Data        ISSN: 2052-4463            Impact factor:   8.501


  27 in total

1.  Arterial spin labeling in combination with a look-locker sampling strategy: inflow turbo-sampling EPI-FAIR (ITS-FAIR).

Authors:  M Günther; M Bock; L R Schad
Journal:  Magn Reson Med       Date:  2001-11       Impact factor: 4.668

2.  Comparing model-based and model-free analysis methods for QUASAR arterial spin labeling perfusion quantification.

Authors:  Michael A Chappell; Mark W Woolrich; Esben T Petersen; Xavier Golay; Stephen J Payne
Journal:  Magn Reson Med       Date:  2012-06-18       Impact factor: 4.668

3.  BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods.

Authors:  Krzysztof J Gorgolewski; Fidel Alfaro-Almagro; Tibor Auer; Pierre Bellec; Mihai Capotă; M Mallar Chakravarty; Nathan W Churchill; Alexander Li Cohen; R Cameron Craddock; Gabriel A Devenyi; Anders Eklund; Oscar Esteban; Guillaume Flandin; Satrajit S Ghosh; J Swaroop Guntupalli; Mark Jenkinson; Anisha Keshavan; Gregory Kiar; Franziskus Liem; Pradeep Reddy Raamana; David Raffelt; Christopher J Steele; Pierre-Olivier Quirion; Robert E Smith; Stephen C Strother; Gaël Varoquaux; Yida Wang; Tal Yarkoni; Russell A Poldrack
Journal:  PLoS Comput Biol       Date:  2017-03-09       Impact factor: 4.475

4.  Test-retest reliability of cerebral blood flow in healthy individuals using arterial spin labeling: Findings from the EMBARC study.

Authors:  Jorge R C Almeida; Tsafrir Greenberg; Hanzhang Lu; Henry W Chase; Jay C Fournier; Crystal M Cooper; Thilo Deckersbach; Phil Adams; Thomas Carmody; Maurizio Fava; Benji Kurian; Patrick J McGrath; Melvin G McInnis; Maria A Oquendo; Ramin Parsey; Myrna Weissman; Madhukar Trivedi; Mary L Phillips
Journal:  Magn Reson Imaging       Date:  2017-09-06       Impact factor: 2.546

5.  The brain imaging data structure, a format for organizing and describing outputs of neuroimaging experiments.

Authors:  Krzysztof J Gorgolewski; Tibor Auer; Vince D Calhoun; R Cameron Craddock; Samir Das; Eugene P Duff; Guillaume Flandin; Satrajit S Ghosh; Tristan Glatard; Yaroslav O Halchenko; Daniel A Handwerker; Michael Hanke; David Keator; Xiangrui Li; Zachary Michael; Camille Maumet; B Nolan Nichols; Thomas E Nichols; John Pellman; Jean-Baptiste Poline; Ariel Rokem; Gunnar Schaefer; Vanessa Sochat; William Triplett; Jessica A Turner; Gaël Varoquaux; Russell A Poldrack
Journal:  Sci Data       Date:  2016-06-21       Impact factor: 6.444

6.  MEG-BIDS, the brain imaging data structure extended to magnetoencephalography.

Authors:  Guiomar Niso; Krzysztof J Gorgolewski; Elizabeth Bock; Teon L Brooks; Guillaume Flandin; Alexandre Gramfort; Richard N Henson; Mainak Jas; Vladimir Litvak; Jeremy T Moreau; Robert Oostenveld; Jan-Mathijs Schoffelen; Francois Tadel; Joseph Wexler; Sylvain Baillet
Journal:  Sci Data       Date:  2018-06-19       Impact factor: 6.444

7.  Consensus-based technical recommendations for clinical translation of renal ASL MRI.

Authors:  Fabio Nery; Charlotte E Buchanan; Anita A Harteveld; Aghogho Odudu; Octavia Bane; Eleanor F Cox; Katja Derlin; H Michael Gach; Xavier Golay; Marcel Gutberlet; Christoffer Laustsen; Alexandra Ljimani; Ananth J Madhuranthakam; Ivan Pedrosa; Pottumarthi V Prasad; Philip M Robson; Kanishka Sharma; Steven Sourbron; Manuel Taso; David L Thomas; Danny J J Wang; Jeff L Zhang; David C Alsop; Sean B Fain; Susan T Francis; María A Fernández-Seara
Journal:  MAGMA       Date:  2019-12-12       Impact factor: 2.533

8.  Cerebral blood flow quantification using vessel-encoded arterial spin labeling.

Authors:  Thomas W Okell; Michael A Chappell; Michael E Kelly; Peter Jezzard
Journal:  J Cereb Blood Flow Metab       Date:  2013-08-07       Impact factor: 6.200

9.  Inter-vendor reproducibility of pseudo-continuous arterial spin labeling at 3 Tesla.

Authors:  Henri J M M Mutsaerts; Rebecca M E Steketee; Dennis F R Heijtel; Joost P A Kuijer; Matthias J P van Osch; Charles B L M Majoie; Marion Smits; Aart J Nederveen
Journal:  PLoS One       Date:  2014-08-04       Impact factor: 3.240

10.  DICOM for quantitative imaging biomarker development: a standards based approach to sharing clinical data and structured PET/CT analysis results in head and neck cancer research.

Authors:  Andriy Fedorov; David Clunie; Ethan Ulrich; Christian Bauer; Andreas Wahle; Bartley Brown; Michael Onken; Jörg Riesmeier; Steve Pieper; Ron Kikinis; John Buatti; Reinhard R Beichel
Journal:  PeerJ       Date:  2016-05-24       Impact factor: 2.984

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  1 in total

Review 1.  Recent Technical Developments in ASL: A Review of the State of the Art.

Authors:  Luis Hernandez-Garcia; Verónica Aramendía-Vidaurreta; Divya S Bolar; Weiying Dai; Maria A Fernández-Seara; Jia Guo; Ananth J Madhuranthakam; Henk Mutsaerts; Jan Petr; Qin Qin; Jonas Schollenberger; Yuriko Suzuki; Manuel Taso; David L Thomas; Matthias J P van Osch; Joseph Woods; Moss Y Zhao; Lirong Yan; Ze Wang; Li Zhao; Thomas W Okell
Journal:  Magn Reson Med       Date:  2022-08-19       Impact factor: 3.737

  1 in total

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