Optimisation of Post-processing Correction of Transmit Field Inhomogeneity in R1 Maps by Relaxometry Modelling
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 (R1) 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 (B1+) inhomogeneity, an increasing problem at higher field strengths. Additional calibration data are typically acquired to correct for B1+ 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 data1. 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 for the B1+ bias field, depending on the particular transmit coil used. Here we show that these parameters can be estimated using a linear relaxometry model framework2, without the need to acquire B1+ 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 B1+- and UNICORT-corrected R1 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 B1+ 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 R1 maps. Nonetheless, maximum accuracy will be achieved through full calibration and correction of the B1+ 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

1. Weiskopf, N. et al. Unified segmentation based correction of R1 brain maps for RF transmit field inhomogeneities (UNICORT). Neuroimage 54, 2116–24 (2011).

2. Callaghan, M. F., Helms, G., Lutti, A., Mohammadi, S. & Weiskopf, N. A general linear relaxometry model of R1 using imaging data. Magn. Reson. Med. 73, 1309–1314 (2015).

3. Weiskopf, N. et al. Quantitative multi-parameter mapping of R1, PD*, MT, and R2* at 3T: a multi-center validation. Front. Neurosci. 7, 1–11 (2013).

4. Grabher, P. et al. Tracking sensory system atrophy and outcome prediction in spinal cord injury. Ann. Neurol. (2015). doi:10.1002/ana.24508

5. Lutti, A. et al. Robust and Fast Whole Brain Mapping of the RF Transmit Field B1 at 7T. PLoS One 7, e32379 (2012).

Figures

Fig.1: Quantitative R1 maps across various processing conditions.

Fig.2: Histograms of error in UNICORT-corrected R1 maps with respect to B1+-corrected maps for a Verio system. The solid line indicates the mean across participants while the shaded area demarcates the standard error.



Proc. Intl. Soc. Mag. Reson. Med. 24 (2016)
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