Martina F Callaghan1, Frederic Dick2, Patrick Grabher3, Tim Keller4, Patrick Freund1,3,5, and Nikolaus Weiskopf1,5
1Wellcome Trust Centre for Neuroimaging, UCL Institute of Neurology, London, United Kingdom, 2Birkbeck/UCL Centre for Neuroimaging, London, United Kingdom, 3Spinal Cord Injury Center Balgrist, University Hospital Zurich, Zurich, Switzerland, 4Department of Psychology, Carnegie Mellon University, Pittsburgh, PA, United States, 5Department of Neurophysics, Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany
Synopsis
Unified segmentation based correction of R1 brain
maps for RF transmit field inhomogeneities (UNICORT) has previously been shown
to reduce bias in R1 maps caused by inhomogeneity in the RF transmit
field (B1+). This approach simultaneously estimates the B1+
inhomogeneities and R1 values from the uncorrected R1
maps without the need for additional B1+ calibration data.
It employs a probabilistic framework that incorporates a physically informed
generative model of smooth transmit field inhomogeneities and their
multiplicative effect on R1 estimates. However, different systems
may require different priors, depending on the particular transmit coil
used. Here we show that these parameters
can be estimated using a linear relaxometry model framework, without the need
to acquire B1+ mapping data.Purpose
qMRI
aims to produce measurements directly related to tissue microstructure with high
diagnostic and research value that are independent of scanner and acquisition
protocol. Maps of the myelin-sensitive longitudinal relaxation rate (R
1)
can be calculated from two high resolution 3D FLASH acquisitions with different
excitation flip angles. However, this measure will contain bias due to transmit
field (B
1+) inhomogeneity, an increasing problem at
higher field strengths. Additional calibration data are typically acquired to
correct for B
1+ inhomogeneity. However, the reference
scan is time consuming and difficult to implement, particularly in a clinical
setting. To facilitate qMRI in such a clinical setting, the UNICORT
post-processing approach was developed as an alternative that does not require
calibration data
1. It employs a probabilistic framework that incorporates
a physically informed generative model of smooth transmit field inhomogeneities
and their multiplicative effect on R
1 estimates. However, different
systems may require different priors for the B
1+ bias field, depending on the
particular transmit coil used. Here we show that these parameters can be
estimated using a linear relaxometry model framework
2, without the need to acquire B
1+
mapping data.
Methods
Data were acquired on two 3T Verio
systems (Siemens Healthcare) as part of whole brain, multi-parameter mapping
protocols3 at two sites without (U. Zuerich) or
with (CMU) B1+ mapping data.
(A) Determining Optimal
Parameters Without B1+ Calibration:
Data were acquired on three participants
with 1mm isotropic resolution4. In addition to maps of R2*
and MT, R1 maps were created using the UNICORT approach while
varying the regularisation (-log10(k)=[1:1:5]) and full-width at half
maximum (FWHM=[30:10:70]) parameters constraining the bias field and fit. In
each case, the UNICORT-corrected R1 map was combined with the original
MT and R2* maps within the linear relaxometry model2. The absolute residuals of the
relaxometry model were integrated within a mask defining white matter and
cortical gray matter for each UNICORT-corrected R1 map. The settings
with the lowest residuals were deemed optimal, since they best respect the established
inter-relation between quantitative parameters.
(B) Testing Optimised
Parameters against B1+ Calibration5:
Data were
acquired on 8 participants with 0.8mm isotropic resolution. Three R1
maps were calculated: 1) using B1+ calibration data 2)
using UNICORT parameters determined to be optimal for a Trio system1 and 3) using the parameters deemed optimal for the Verio system in step (A). Histograms were used to
analyse the error of the UNICORT-corrected R1 maps with respect to
the B1+-corrected R1 maps.
Results
Optimum parameters for the Verio system determined in (A) were k=10
-3 and FWHM=30mm.
Example B
1+- and UNICORT-corrected R
1 maps are
shown in fig. 1 (note the differential anterior-posterior gradient). Histograms of
the error across the cohort are summarised in fig. 2. The peak error was reduced
from 8.2% to 0.3% using the parameters deemed optimal for the Verio system in
(A).
Conclusions
By using the linear relaxometry
model, optimisation of UNICORT parameters can be achieved without the acquisition
of B
1+ calibration data, though such data was used for
verification here. This approach demonstrates the importance of, and provides a
solution to, optimising UNICORT priors for the particular transmit coil used in
order to minimise bias in R
1 maps. Nonetheless, maximum accuracy
will be achieved through full calibration and correction of the B
1+
transmit field and should be the preferred approach where possible.
Acknowledgements
This work was supported by the
Wellcome Trust and a Rothberg Research Award in Human Brain Imaging.References
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N. et al. Unified segmentation based correction of R1 brain maps for RF
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