Considerations and recommendations from the ISMRM diffusion study group for preclinical diffusion MRI: Part 2—Ex vivo imaging: Added value and acquisition: Part 2—Ex vivo imaging: Added value and acquisition
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| Title: | Considerations and recommendations from the ISMRM diffusion study group for preclinical diffusion MRI: Part 2—Ex vivo imaging: Added value and acquisition: Part 2—Ex vivo imaging: Added value and acquisition |
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| Authors: | Schilling, Kurt G., Grussu, Francesco, Ianus, Andrada, Hansen, Brian, Howard, Amy F. D., Barrett, Rachel L. C., Aggarwal, Manisha, Michielse, Stijn, Nasrallah, Fatima, Syeda, Warda, Wang, Nian, Veraart, Jelle, Roebroeck, Alard, Bagdasarian, Andrew F., Eichner, Cornelius, Sepehrband, Farshid, Zimmermann, Jan, Soustelle, Lucas, Bowman, Christien, Tendler, Benjamin C., Hertanu, Andreea, Jeurissen, Ben, Verhoye, Marleen, Frydman, Lucio, van de Looij, Yohan, Hike, David, Dunn, Jeff F., Miller, Karla, Landman, Bennett A., Shemesh, Noam, Anderson, Adam, McKinnon, Emilie, Farquharson, Shawna, Dell'Acqua, Flavio, Pierpaoli, Carlo, Drobnjak, Ivana, Leemans, Alexander, Harkins, Kevin D., Descoteaux, Maxime, Xu, Duan, Huang, Hao, Santin, Mathieu D., Grant, Samuel C., Obenaus, Andre, Kim, Gene S., Wu, Dan, Le Bihan, Denis, Blackband, Stephen J., Ciobanu, Luisa, Fieremans, Els, Bai, Ruiliang, Leergaard, Trygve B., Zhang, Jiangyang, Dyrby, Tim B., Johnson, G. Allan, Cohen‐Adad, Julien, Budde, Matthew D., Jelescu, Ileana O. |
| Contributors: | Institut Català de la Salut, [Schilling KG] Radiology and Radiological Sciences, Vanderbilt University Medical Center, Nashville, Tennessee USA. Vanderbilt University Institute of Imaging Science, Vanderbilt University, Nashville, Tennessee USA. [Grussu F] Radiomics Group, Vall d’Hebron Institute of Oncology (VHIO), Barcelona, Spain. Queen Square MS Centre, Queen Square Institute of Neurology, Faculty of Brain Sciences, University College London, London, UK. [Ianus A] Champalimaud Research, Champalimaud Foundation, Lisbon, Portugal. School of Biomedical Engineering and Imaging Sciences, King’s College London, London. [Hansen B] Center of Functionally Integrative Neuroscience, Aarhus University, Aarhus, Denmark. [Howard AFD] Department of Bioengineering, Imperial College London, London, UK. FMRIB Centre, Wellcome Centre for Integrative Neuroimaging, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford, UK. [Barrett RLC] Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King’s College London, London, UK. NatBrainLab, Department of Forensics and Neurodevelopmental Sciences, Institute of Psychiatry, Psychology and Neuroscience, King’s College London, London, UK, Vall d'Hebron Barcelona Hospital Campus, Beeldverwerking ISI, Brain, Cancer |
| Source: | Magn Reson Med Scientia Scientia. Dipòsit d'Informació Digital del Departament de Salut instname Magnetic resonance in medicine, vol. 93, no. 6, pp. 2535-2560 Magnetic resonance in medicine Schilling, K G, Grussu, F, Ianus, A, Hansen, B, Howard, A FD, Barrett, R L C, Aggarwal, M, Michielse, S, Nasrallah, F, Syeda, W, Wang, N, Veraart, J, Roebroeck, A, Bagdasarian, A F, Eichner, C, Sepehrband, F, Zimmermann, J, Soustelle, L, Bowman, C, Tendler, B C, Hertanu, A, Jeurissen, B, Frydman, L, van de Looij, Y, Hike, D, Dunn, J F, Miller, K, Landman, B A, Shemesh, N, Anderson, A, McKinnon, E, Farquharson, S, Acqua, F D, Pierpaoli, C, Drobnjak, I, Leemans, A, Harkins, K D, Descoteaux, M, Xu, D, Huang, H, Santin, M D, Grant, S C, Obenaus, A, Kim, G S, Wu, D, Bihan, D L, Blackband, S J, Ciobanu, L, Fieremans, E, Bai, R, Leergaard, T, Zhang, J, Dyrby, T B, Johnson, G A, Cohen-Adad, J, Budde, M D & Jelescu, I O 2025, 'Considerations and recommendations from the ISMRM Diffusion Study Group for preclinical diffusion MRI : Part 2--Ex vivo imaging: added value and acquisition', Magnetic Resonance in Medicine, vol. 93, no. 6, pp. 2535-2560. https://doi.org/10.1002/mrm.30435 Schilling, K G, Grussu, F, Ianus, A, Hansen, B, Howard, A F D, Barrett, R L C, Aggarwal, M, Michielse, S, Nasrallah, F, Syeda, W, Wang, N, Veraart, J, Roebroeck, A, Bagdasarian, A F, Eichner, C, Sepehrband, F, Zimmermann, J, Soustelle, L, Bowman, C, Tendler, B C, Hertanu, A, Jeurissen, B, Verhoye, M, Frydman, L, van de Looij, Y, Hike, D, Dunn, J F, Miller, K, Landman, B A, Shemesh, N, Anderson, A, McKinnon, E, Farquharson, S, Dell'Acqua, F, Pierpaoli, C, Drobnjak, I, Leemans, A, Harkins, K D, Descoteaux, M, Xu, D, Huang, H, Santin, M D, Grant, S C, Obenaus, A, Kim, G S, Wu, D, Le Bihan, D, Blackband, S J, Ciobanu, L, Fieremans, E, Bai, R, Leergaard, T B, Zhang, J, Dyrby, T B, Johnson, G A, Cohen-Adad, J, Budde, M D & Jelescu, I O 2025, 'Considerations and recommendations from the ISMRM diffusion study group for preclinical diffusion MRI : Part 2-Ex vivo imaging: Added value and acquisition', Magnetic Resonance in Medicine, vol. 93, no. 6, pp. 2535-2560. https://doi.org/10.1002/mrm.30435 |
| Publication Status: | Preprint |
| Publisher Information: | Wiley, 2025. |
| Publication Year: | 2025 |
| Subject Terms: | q-bio.TO, TÉCNICAS Y EQUIPOS ANALÍTICOS, DIAGNÓSTICOS Y TERAPÉUTICOS::diagnóstico::técnicas y procedimientos diagnósticos::diagnóstico por imagen::tomografía::imagen por resonancia magnética::imagen de resonancia magnética de difusión, tractography, Review, physics.med-ph, Signal-To-Noise Ratio, Diffusion Magnetic Resonance Imaging/methods, Brain/diagnostic imaging, Animals, Image Processing, Computer-Assisted/methods, Humans, Reproducibility of Results, acquisition, best practices, diffusion MRI, diffusion tensor, ex vivo, microstructure, open science, preclinical, processing, 0302 clinical medicine, TENSOR MICROSCOPY, Image Processing, Computer-Assisted, ANATOMÍA::sistema nervioso::sistema nervioso central::encéfalo, Tissues and Organs (q-bio.TO), IN-VIVO, T-2 RELAXATION, MOUSE-BRAIN, Preclinical and Clinical Imaging, Animals de laboratori, Otros calificadores::Otros calificadores::Otros calificadores::/diagnóstico por imagen, Other subheadings::Other subheadings::Other subheadings::/diagnostic imaging, Brain, WATER DIFFUSION, ORGANISMOS::Eukaryota::animales, ANATOMY::Nervous System::Central Nervous System::Brain, AXON DIAMETER, WHITE-MATTER, FOS: Physical sciences, WAXHOLM SPACE ATLAS, 03 medical and health sciences, MAGNETIC-RESONANCE MICROSCOPY, Imatges - Processament, ANALYTICAL, DIAGNOSTIC AND THERAPEUTIC TECHNIQUES, AND EQUIPMENT::Diagnosis::Diagnostic Techniques and Procedures::Diagnostic Imaging::Tomography::Magnetic Resonance Imaging::Diffusion Magnetic Resonance Imaging, Journal Article, POSTMORTEM HUMAN BRAINS, Computer. Automation, ORGANISMS::Eukaryota::Animals, INFORMATION SCIENCE::Information Science::Computing Methodologies::Image Processing, Computer-Assisted, Quantitative Biology - Tissues and Organs, Cervell - Imatgeria, Physics - Medical Physics, CIENCIA DE LA INFORMACIÓN::Ciencias de la información::metodologías computacionales::procesamiento de imágenes asistido por ordenador, Diffusion Magnetic Resonance Imaging, FOS: Biological sciences, Imatgeria per ressonància magnètica, Human medicine, Medical Physics (physics.med-ph) |
| Description: | The value of preclinical diffusion MRI (dMRI) is substantial. While dMRI enables in vivo non‐invasive characterization of tissue, ex vivo dMRI is increasingly being used to probe tissue microstructure and brain connectivity. Ex vivo dMRI has several experimental advantages including higher SNR and spatial resolution compared to in vivo studies, and enabling more advanced diffusion contrasts for improved microstructure and connectivity characterization. Another major advantage of ex vivo dMRI is the direct comparison with histological data, as a crucial methodological validation. However, there are a number of considerations that must be made when performing ex vivo experiments. The steps from tissue preparation, image acquisition and processing, and interpretation of results are complex, with many decisions that not only differ dramatically from in vivo imaging of small animals, but ultimately affect what questions can be answered using the data. This work represents “Part 2” of a three‐part series of recommendations and considerations for preclinical dMRI. We describe best practices for dMRI of ex vivo tissue, with a focus on the value that ex vivo imaging adds to the field of dMRI and considerations in ex vivo image acquisition. We first give general considerations and foundational knowledge that must be considered when designing experiments. We briefly describe differences in specimens and models and discuss why some may be more or less appropriate for different studies. We then give guidelines for ex vivo protocols, including tissue fixation, sample preparation, and MR scanning. In each section, we attempt to provide guidelines and recommendations, but also highlight areas for which no guidelines exist (and why), and where future work should lie. An overarching goal herein is to enhance the rigor and reproducibility of ex vivo dMRI acquisitions and analyses, and thereby advance biomedical knowledge. |
| Document Type: | Article Other literature type |
| File Description: | application/pdf |
| Language: | English |
| ISSN: | 1522-2594 0740-3194 |
| DOI: | 10.1002/mrm.30435 |
| DOI: | 10.48550/arxiv.2209.13371 |
| Access URL: | https://pubmed.ncbi.nlm.nih.gov/40035293 http://arxiv.org/abs/2209.13371 http://hdl.handle.net/11351/13141 https://cris.maastrichtuniversity.nl/en/publications/91464b07-cf1e-40bc-a5dd-a22d3343ebe3 https://doi.org/10.1002/mrm.30435 https://dspace.library.uu.nl/handle/1874/461037 https://publications.polymtl.ca/63294/ https://doi.org/10.1002/mrm.30435 https://serval.unil.ch/resource/serval:BIB_C2EC208677CB.P001/REF.pdf http://nbn-resolving.org/urn/resolver.pl?urn=urn:nbn:ch:serval-BIB_C2EC208677CB8 https://serval.unil.ch/notice/serval:BIB_C2EC208677CB https://repository.uantwerpen.be/docstore/d:irua:28144 https://hdl.handle.net/10067/2133410151162165141 https://pure.au.dk/portal/en/publications/d359c3f3-302e-444f-8900-7ab30e23428a https://kclpure.kcl.ac.uk/portal/en/publications/e7a2b61b-b881-4448-9907-6245f64a1348 https://pure.au.dk/portal/en/publications/d359c3f3-302e-444f-8900-7ab30e23428a http://www.scopus.com/inward/record.url?scp=105001807462&partnerID=8YFLogxK https://doi.org/10.1002/mrm.30435 https://pure.au.dk/ws/files/420524020/2209.13371v3.pdf |
| Rights: | CC BY |
| Accession Number: | edsair.doi.dedup.....673562d360bd28ba8e5f2834a6e4bcc0 |
| Database: | OpenAIRE |
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Nájsť tento článok vo Web of Science | Abstract: | The value of preclinical diffusion MRI (dMRI) is substantial. While dMRI enables in vivo non‐invasive characterization of tissue, ex vivo dMRI is increasingly being used to probe tissue microstructure and brain connectivity. Ex vivo dMRI has several experimental advantages including higher SNR and spatial resolution compared to in vivo studies, and enabling more advanced diffusion contrasts for improved microstructure and connectivity characterization. Another major advantage of ex vivo dMRI is the direct comparison with histological data, as a crucial methodological validation. However, there are a number of considerations that must be made when performing ex vivo experiments. The steps from tissue preparation, image acquisition and processing, and interpretation of results are complex, with many decisions that not only differ dramatically from in vivo imaging of small animals, but ultimately affect what questions can be answered using the data. This work represents “Part 2” of a three‐part series of recommendations and considerations for preclinical dMRI. We describe best practices for dMRI of ex vivo tissue, with a focus on the value that ex vivo imaging adds to the field of dMRI and considerations in ex vivo image acquisition. We first give general considerations and foundational knowledge that must be considered when designing experiments. We briefly describe differences in specimens and models and discuss why some may be more or less appropriate for different studies. We then give guidelines for ex vivo protocols, including tissue fixation, sample preparation, and MR scanning. In each section, we attempt to provide guidelines and recommendations, but also highlight areas for which no guidelines exist (and why), and where future work should lie. An overarching goal herein is to enhance the rigor and reproducibility of ex vivo dMRI acquisitions and analyses, and thereby advance biomedical knowledge. |
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| ISSN: | 15222594 07403194 |
| DOI: | 10.1002/mrm.30435 |