Download the full-sized PDF of Volumetric Quantitative Brain Magnetic Resonance Imaging - Application to CancerDownload the full-sized PDF



Permanent link (DOI):


Export to: EndNote  |  Zotero  |  Mendeley


This file is in the following communities:

Graduate Studies and Research, Faculty of


This file is in the following collections:

Theses and Dissertations

Volumetric Quantitative Brain Magnetic Resonance Imaging - Application to Cancer Open Access


Other title
Quantitative MRI
Structural Brain Imaging
Primary Brain Tumors
Parametric Mapping
Radiation Therapy
Multi-Parameter Mapping
Type of item
Degree grantor
University of Alberta
Author or creator
Jutras, Jean-David
Supervisor and department
De Zanche, Nicola (Oncology)
Examining committee member and department
Wilman, Alan H. (Biomedical Engineering)
De Zanche, Nicola (Oncology)
Rathee, Satyapal (Oncology)
Fallone, B. Gino (Oncology)
Yahyah, Atiyah (Oncology)
Thompson, Richard (Biomedical Engineering)
Frayne, Richard (Radiology and Clinical Neuroscience, University of Calgary)
Wachowicz, Keith (Oncology)
Department of Oncology
Medical Physics
Date accepted
Graduation date
2017-06:Spring 2017
Doctor of Philosophy
Degree level
Quantitative Magnetic Resonance Imaging (qMRI) is occupying an increasingly prominent role in the study of the brain, by virtue of its sensitivity to physiological and anatomical changes. However, because qMRI techniques tend to suffer from long scan durations and/or post-processing times, as well as a propensity for various systematic errors and image artifacts, they still remain somewhat separated from the standard clinical practice. This doctoral dissertation proposes new solutions for overcoming some of these challenges, especially within the context of radiation treatment planning and post-treatment monitoring of brain cancer. This application requires: 1) geometrical fidelity, 2) high resolution and contrast-to-noise ratios, and 3) accurate dose simulation directly on MRI voxels. To meet these requirements, time-efficient image acquisition strategies and post-processing pipelines are newly designed and optimized for generating quantitative proton-density, T1, T2, T2*, magnetization transfer and synthetic Computed Tomography maps. In chapter 3, bipolar multi-echo gradient echo sequences are optimized for structural brain imaging and multi-parameter mapping, yielding SNR gains of 1.3- to 1.6-fold while reducing geometrical distortions by 3-fold over their conventional single-echo counterparts. In chapter 4, closed-form analytical solutions are derived to enable fast T2 mapping from bSSFP sequences while minimizing errors arising from off-resonance and magnetization-transfer effects. In chapter 5, we propose a new correction technique for transmit and receive RF inhomogeneity in proton-density and T1 maps using a bias-field correction algorithm, outperforming conventional B1 mapping. Finally, chapter 6 presents an improved automatic tissue classification method using an ultra-short TE MRI sequence, generating continuous-valued synthetic CT images for the purpose of automatic dose simulation in radiation treatment planning. The synthetic CT images yield equivalent dose distributions (~1% difference in dose volume histograms) in brain cancer patients. The imaging methodologies developed throughout this thesis are also tested both on healthy volunteers and cancer patients with primary brain tumors. Although the focus of this thesis is primarily on cancer care, the qMRI techniques developed and discussed throughout are applicable to brain imaging for numerous other diseases.
This thesis is made available by the University of Alberta Libraries with permission of the copyright owner solely for the purpose of private, scholarly or scientific research. This thesis, or any portion thereof, may not otherwise be copied or reproduced without the written consent of the copyright owner, except to the extent permitted by Canadian copyright law.
Citation for previous publication
Jutras, J.-D., K. Wachowicz, G. Gilbert, N. De Zanche. (2016) SNR Efficiency of combined bipolar gradient echoes: Comparison of three-dimensional FLASH, MPRAGE and multiparameter mapping with VFA-FLASH and MP2RAGE. Magnetic Resonance in Medicine (Early View). DOI: 10.1002/mrm.26306 Jutras, J.-D., K. Wachowicz, N. De Zanche. (2016) Analytical corrections of banding artifacts in driven equilibrium single pulse observation of T2 (DESPOT2). Magnetic Resonance in Medicine 76:1790-1804. DOI: 10.1002/mrm.26074

File Details

Date Uploaded
Date Modified
Audit Status
Audits have not yet been run on this file.
File format: pdf (PDF/X)
Mime type: application/pdf
File size: 24133761
Last modified: 2017:06:13 12:18:35-06:00
Filename: Jutras_JeanDavid_201701_PhD.pdf
Original checksum: 4aad7be0bcd3efed8e0271689ba88db7
Activity of users you follow
User Activity Date