Considerations and recommendations from the ISMRM diffusion study group for preclinical diffusion MRI: Part 1: In vivo small‐animal imaging
Copyright policy )Considerations and recommendations from the ISMRM diffusion study group for preclinical diffusion MRI: Part 1: In vivo small‐animal imaging
AbstractSmall‐animal diffusion MRI (dMRI) has been used for methodological development and validation, characterizing the biological basis of diffusion phenomena, and comparative anatomy. The steps from animal setup and monitoring, to acquisition, analysis, and interpretation are complex, with many decisions that may ultimately affect what questions can be answered using the resultant data. This work aims to present selected considerations and recommendations from the diffusion community on best practices for preclinical dMRI of in vivo animals. We describe the general considerations and foundational knowledge that must be considered when designing experiments. We briefly describe differences in animal species and disease models and discuss why some may be more or less appropriate for different studies. We, then, give recommendations for in vivo acquisition protocols, including decisions on hardware, animal preparation, and imaging sequences, followed by advice for data processing including preprocessing, model‐fitting, and tractography. Finally, we provide an online resource that lists publicly available preclinical dMRI datasets and software packages to promote responsible and reproducible research. In each section, we attempt to provide guides and recommendations, but also highlight areas for which no guidelines exist (and why), and where future work should focus. Although we mainly cover the central nervous system (on which most preclinical dMRI studies are focused), we also provide, where possible and applicable, recommendations for other organs of interest. An overarching goal is to enhance the rigor and reproducibility of small animal dMRI acquisitions and analyses, and thereby advance biomedical knowledge.
- Technical University of Denmark Denmark
- Duke University United States
- Neurospin France
- University of California, Riverside United States
- National Science Foundation United States
small animal, 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, Image Processing, Computer-Assisted/methods, diffusion tensor, microstructure, tractography, FOS: Physical sciences, Review, physics.med-ph, ORGANISMOS::Eukaryota::animales::Chordata::vertebrados::mamíferos::Eutheria::Rodentia::Muridae::Murinae::ratones, diffusion MRI, Mice, Imatges - Processament, ANALYTICAL, DIAGNOSTIC AND THERAPEUTIC TECHNIQUES, AND EQUIPMENT::Diagnosis::Diagnostic Techniques and Procedures::Diagnostic Imaging::Tomography::Magnetic Resonance Imaging::Diffusion Magnetic Resonance Imaging, open science, preclinical, Animals; Diffusion Magnetic Resonance Imaging/methods; Image Processing, Computer-Assisted/methods; Brain/diagnostic imaging; Software; Mice; Reproducibility of Results; acquisition; best practices; diffusion MRI; diffusion tensor; microstructure; open science; preclinical; processing; small animal; tractography, Journal Article, Image Processing, Computer-Assisted, best practices, Animals, Tissues and Organs (q-bio.TO), Rates (Animals de laboratori), Computer. Automation, Preclinical and Clinical Imaging, acquisition, INFORMATION SCIENCE::Information Science::Computing Methodologies::Image Processing, Computer-Assisted, Brain, Reproducibility of Results, Quantitative Biology - Tissues and Organs, Brain/diagnostic imaging, Physics - Medical Physics, Diffusion Magnetic Resonance Imaging/methods, 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, processing, Human medicine, Medical Physics (physics.med-ph), ORGANISMS::Eukaryota::Animals::Chordata::Vertebrates::Mammals::Eutheria::Rodentia::Muridae::Murinae::Mice, Software
small animal, 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, Image Processing, Computer-Assisted/methods, diffusion tensor, microstructure, tractography, FOS: Physical sciences, Review, physics.med-ph, ORGANISMOS::Eukaryota::animales::Chordata::vertebrados::mamíferos::Eutheria::Rodentia::Muridae::Murinae::ratones, diffusion MRI, Mice, Imatges - Processament, ANALYTICAL, DIAGNOSTIC AND THERAPEUTIC TECHNIQUES, AND EQUIPMENT::Diagnosis::Diagnostic Techniques and Procedures::Diagnostic Imaging::Tomography::Magnetic Resonance Imaging::Diffusion Magnetic Resonance Imaging, open science, preclinical, Animals; Diffusion Magnetic Resonance Imaging/methods; Image Processing, Computer-Assisted/methods; Brain/diagnostic imaging; Software; Mice; Reproducibility of Results; acquisition; best practices; diffusion MRI; diffusion tensor; microstructure; open science; preclinical; processing; small animal; tractography, Journal Article, Image Processing, Computer-Assisted, best practices, Animals, Tissues and Organs (q-bio.TO), Rates (Animals de laboratori), Computer. Automation, Preclinical and Clinical Imaging, acquisition, INFORMATION SCIENCE::Information Science::Computing Methodologies::Image Processing, Computer-Assisted, Brain, Reproducibility of Results, Quantitative Biology - Tissues and Organs, Brain/diagnostic imaging, Physics - Medical Physics, Diffusion Magnetic Resonance Imaging/methods, 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, processing, Human medicine, Medical Physics (physics.med-ph), ORGANISMS::Eukaryota::Animals::Chordata::Vertebrates::Mammals::Eutheria::Rodentia::Muridae::Murinae::Mice, Software
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