Cargando…
QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures
PURPOSE: To create a realistic in silico head phantom for the second QSM reconstruction challenge and for future evaluations of processing algorithms for QSM. METHODS: We created a digital whole‐head tissue property phantom by segmenting and postprocessing high‐resolution (0.64 mm isotropic), multip...
Autores principales: | , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
John Wiley and Sons Inc.
2021
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8048665/ https://www.ncbi.nlm.nih.gov/pubmed/33638241 http://dx.doi.org/10.1002/mrm.28716 |
_version_ | 1783679273055289344 |
---|---|
author | Marques, José P. Meineke, Jakob Milovic, Carlos Bilgic, Berkin Chan, Kwok‐Shing Hedouin, Renaud van der Zwaag, Wietske Langkammer, Christian Schweser, Ferdinand |
author_facet | Marques, José P. Meineke, Jakob Milovic, Carlos Bilgic, Berkin Chan, Kwok‐Shing Hedouin, Renaud van der Zwaag, Wietske Langkammer, Christian Schweser, Ferdinand |
author_sort | Marques, José P. |
collection | PubMed |
description | PURPOSE: To create a realistic in silico head phantom for the second QSM reconstruction challenge and for future evaluations of processing algorithms for QSM. METHODS: We created a digital whole‐head tissue property phantom by segmenting and postprocessing high‐resolution (0.64 mm isotropic), multiparametric MRI data acquired at 7 T from a healthy volunteer. We simulated the steady‐state magnetization at 7 T using a Bloch simulator and mimicked a Cartesian sampling scheme through Fourier‐based processing. Computer code for generating the phantom and performing the MR simulation was designed to facilitate flexible modifications of the phantom in the future, such as the inclusion of pathologies as well as the simulation of a wide range of acquisition protocols. Specifically, the following parameters and effects were implemented: TR and TE, voxel size, background fields, and RF phase biases. Diffusion‐weighted imaging phantom data are provided, allowing future investigations of tissue‐microstructure effects in phase and QSM algorithms. RESULTS: The brain part of the phantom featured realistic morphology with spatial variations in relaxation and susceptibility values similar to the in vivo setting. We demonstrated some of the phantom’s properties, including the possibility of generating phase data with nonlinear evolution over TE due to partial‐volume effects or complex distributions of frequency shifts within the voxel. CONCLUSION: The presented phantom and computer programs are publicly available and may serve as a ground truth in future assessments of the faithfulness of quantitative susceptibility reconstruction algorithms. |
format | Online Article Text |
id | pubmed-8048665 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | John Wiley and Sons Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-80486652021-04-19 QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures Marques, José P. Meineke, Jakob Milovic, Carlos Bilgic, Berkin Chan, Kwok‐Shing Hedouin, Renaud van der Zwaag, Wietske Langkammer, Christian Schweser, Ferdinand Magn Reson Med Full Papers—Computer Processing and Modeling PURPOSE: To create a realistic in silico head phantom for the second QSM reconstruction challenge and for future evaluations of processing algorithms for QSM. METHODS: We created a digital whole‐head tissue property phantom by segmenting and postprocessing high‐resolution (0.64 mm isotropic), multiparametric MRI data acquired at 7 T from a healthy volunteer. We simulated the steady‐state magnetization at 7 T using a Bloch simulator and mimicked a Cartesian sampling scheme through Fourier‐based processing. Computer code for generating the phantom and performing the MR simulation was designed to facilitate flexible modifications of the phantom in the future, such as the inclusion of pathologies as well as the simulation of a wide range of acquisition protocols. Specifically, the following parameters and effects were implemented: TR and TE, voxel size, background fields, and RF phase biases. Diffusion‐weighted imaging phantom data are provided, allowing future investigations of tissue‐microstructure effects in phase and QSM algorithms. RESULTS: The brain part of the phantom featured realistic morphology with spatial variations in relaxation and susceptibility values similar to the in vivo setting. We demonstrated some of the phantom’s properties, including the possibility of generating phase data with nonlinear evolution over TE due to partial‐volume effects or complex distributions of frequency shifts within the voxel. CONCLUSION: The presented phantom and computer programs are publicly available and may serve as a ground truth in future assessments of the faithfulness of quantitative susceptibility reconstruction algorithms. John Wiley and Sons Inc. 2021-02-26 2021-07 /pmc/articles/PMC8048665/ /pubmed/33638241 http://dx.doi.org/10.1002/mrm.28716 Text en © 2021 The Authors. Magnetic Resonance in Medicine published by Wiley Periodicals LLC on behalf of International Society for Magnetic Resonance in Medicine. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Full Papers—Computer Processing and Modeling Marques, José P. Meineke, Jakob Milovic, Carlos Bilgic, Berkin Chan, Kwok‐Shing Hedouin, Renaud van der Zwaag, Wietske Langkammer, Christian Schweser, Ferdinand QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures |
title | QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures |
title_full | QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures |
title_fullStr | QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures |
title_full_unstemmed | QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures |
title_short | QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures |
title_sort | qsm reconstruction challenge 2.0: a realistic in silico head phantom for mri data simulation and evaluation of susceptibility mapping procedures |
topic | Full Papers—Computer Processing and Modeling |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8048665/ https://www.ncbi.nlm.nih.gov/pubmed/33638241 http://dx.doi.org/10.1002/mrm.28716 |
work_keys_str_mv | AT marquesjosep qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT meinekejakob qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT miloviccarlos qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT bilgicberkin qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT chankwokshing qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT hedouinrenaud qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT vanderzwaagwietske qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT langkammerchristian qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures AT schweserferdinand qsmreconstructionchallenge20arealisticinsilicoheadphantomformridatasimulationandevaluationofsusceptibilitymappingprocedures |