Model-Based Simultaneous Multi-Slice (SMS) Reconstruction with Hankel Subspace Learning for Accelerated MR T1 Mapping
Abstract
1. Introduction
2. Methods
2.1. Related Studies
- (1)
- Simultaneous Multi-slice (SMS) Acquisition: An SMS signal is modeled by combining multiple slices:where is the measured aliased SMS signal in k space for the coil, is the desired voxel signal at the slice, is the coil sensitivity map at the coil, is the desired k-space signal at the slice, and is the additive noise. The coil sensitivity map () refers to the sensitivity a particular channel to a specific location in space. To cover the desired field of view (FOV), individual receiver coils are arranged in an array, and their sensitivity maps are designed accordingly. When conducting an MR scan using multiple coils, the resulting images from each channel need to be combined to create a single image. This combination can be achieved by summing the squares of the images (sum of squares) [34,35,36]. For slice unfolding, is estimated using slice-specific coil sensitivity maps in either the image or k-space domain as the solution of an inverse problem in Equation (1).
- (2)
- SMS-GRAPPA: To synthesize a slice of interest on the collapsed k-space data, we calculate a slice-specific SMS kernel using the collapsed and aliasing-free k-space data:where is a vector of k-space data at the m slice acquired from the calibration, is a vector of SMS k-space data emulated from the calibration, and is a matrix that generates the m slice by convolving the k-space data with a series of SMS kernels. To explicitly control the cross-talk artifacts between neighboring slices, the SP-SG is introduced by enforcing signals in other slices to zero while keeping the target slice signals preserved in the k-space domain [15,16,17,18]:Once the SMS kernel is calculated using the inverse problem, each slice is estimated by projecting the SMS k-space data onto the subspace spanned by the SMS kernel.
- (3)
- SMS-HSL: Hankel Subspace Learning for Slice Nulling: To take advantage of low-rank properties for both slice separation and data correlation in k-space, we reorganize the SMS signals as a Hankel-structured matrix, then decompose them into a slice of interest and its complementary slices:where is the complementary slice that combines all slices other than the slice, and is the Hankel-structured noise matrix. is the Hankel operator that produces a Hankel-structured matrix by sliding × patches with frequency encoders, phase encoders, and coils.
2.2. Proposed Method
- (1)
- SMS Signal Model in the k-Parameter Dimension: The signal model for the SMS with parameter dimensions can be represented by:where is the measured aliased SMS signal in k space for the coil, p is the parameter index, is the desired voxel signal at the slice, is the coil sensitivity at the coil, is the desired k-space signal at the slice, and is the additive noise that is modeled to have a complex white Gaussian distribution. To separate the aliased SMS signal, the complementary null space can be learned from the low-resolution reference data. It was observed in a previous study [32] that the idea of estimating a set of vectors in the noise subspace can be extended to separate overlapping slices using a mathematical model in which the null space project enforces the acquired SMS data to lie in the noise subspace only for the neighboring slice; consequently, slices of no interest are filtered out. The null space concept can be applied extensively to MR parameter mapping under the assumption that the predefined null space remains invariant along the parameter dimension. In Figure 1, the slice-specific null space shows a strong dependence on slice encoding rather than on image contrast. To avoid time-consuming calibration along the parameter dimension, the complementary null space is learned from the complementary Hankel-structured SMS signal through singular value decomposition (SVD) by taking right singular vectors corresponding to low singular values from the first TI low-resolution reference datum and projecting all parameter dimensions to separate aliasing SMS signals. Then, the null space projection effectively filters out a slice of no interest while passing through a slice of interest, regardless of the parameter dimension. An illustration is also provided in Figure S1.Given the multi-channel SMS signals in k-p space for parameter mapping, strong correlations among neighboring signals can be selected in the Hankel matrix by using sliding patches ( × ) in k-p space over coils using a Hankel operator:Then, the SMS signal model can be represented in matrix form as:where is the aliased Hankel matrix including all parameter dimensions, is the Hankel matrix, and N is the Hankel-structured noise matrix.
- (2)
- Aliasing Separation: Given the considerations mentioned above, we incorporate null space projection () and a low-rank prior () into the single optimization problem with data fidelity. The proposed method is summarized in (Algorithm 1):where the first term is data fidelity, the second term is the reconstruction fidelity, the third term () is the low-rank prior, and is the regularization parameter. The null-space projection errors in the second term are independent of slices, and the low rankness of is independent of slices. Therefore, we can use projection onto convex sets (POCS) to ensure the data fidelity of every iteration.The above equation is reformulated by introducing new auxiliary variables for a low-rank prior under the variable-splitting algorithm [37,38,39]:where is the desired signal (), and is the auxiliary matrix for the slice-specific Hankel-matrix. The unknown variables can be recovered by solving the following minimization problem using the alternating direction method (ADM) [37,38,39]. The first step is to minimize with respect to , which is estimated using a singular-value soft thresholding method:where is the singular value shrinkage function that is defined by:
| Algorithm 1: Model-based SMS Reconstruction of MR T1 Mapping |
|
3. Experiments
- (1)
- IR-GE-EPI: Fully sampled brain k-space data were collected by a 3T GE Discovery scanner equipped with a 32-channel receiver head coil using a 2D IR-GE-EPI sequence. The following parameters were used for IR-GE-EPI: FOV = , matrix size = , slice thickness = 2 mm, number of slices = 25, TR/TE = 30,000 ms/40 ms, and 15 IR scans (TI = 50, 250, 450, 650, 850, 1050, 1250, 1450, 1650, 1850, 2050, 2250, 2450, 2650, and 2850 ms). For algorithm validation, our experiments used four slices (3rd, 10th, 17th, and 24th slices) from this dataset with an SMS factor of 4.
- (2)
- IR-SE-EPI: Fully sampled brain k-space data were collected by a 3T Prisma equipped with a 20-channel receiver head coil using a 2D IR-SE-EPI sequence. The following parameters were used for IR-SE-EPI: FOV = , matrix size = , slice thickness = 3 mm, number of slices = 30, TR/TE = 20,000 ms/27 ms, 16 IR scans (TI = 34, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1200, 1400, 1600, 1800, and 2000 ms), and partial Fourier (PF) = 62.5%. To compare the slice unaliasing performance of the current state-of-the-art techniques listed in the Introduction, our experiments used five slices (1st, 7th, 13th, 19th, and 25th slices) from this dataset with ab SMS factor of 5.
- (3)
- Slice-Shuffled SMS IR-SE-EPI: Prospective brain k-space data were collected by a 3T GE Discovery scanner equipped with a 32-channel receiver head coil using a slice-shuffled SMS IR-SE-EPI sequence [40]. The following parameters were used for slice-shuffled SMS IR-EPI: FOV = , matrix size = , slice thickness = 2 mm, number of slices = 75, TR/TE = 3000 ms/25 ms, 13 IR scans (TI = 50 + × TR/N ms, with n = 0, 1, …, 24), specific CAIPI phase shift = FOV/3, in-plane acceleration = 2, and SMS factor = 5.
4. Results
4.1. Image Reconstruction: Stepwise Validation
4.2. Retrospective Studies: SMS Simulation
4.3. Prospective Studies: Experimental Validation
5. Discussion and Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Kim, S.; Wu, H.; Han, J.-H. Model-Based Simultaneous Multi-Slice (SMS) Reconstruction with Hankel Subspace Learning for Accelerated MR T1 Mapping. Mathematics 2023, 11, 2963. https://doi.org/10.3390/math11132963
Kim S, Wu H, Han J-H. Model-Based Simultaneous Multi-Slice (SMS) Reconstruction with Hankel Subspace Learning for Accelerated MR T1 Mapping. Mathematics. 2023; 11(13):2963. https://doi.org/10.3390/math11132963
Chicago/Turabian StyleKim, Sugil, Hua Wu, and Jae-Ho Han. 2023. "Model-Based Simultaneous Multi-Slice (SMS) Reconstruction with Hankel Subspace Learning for Accelerated MR T1 Mapping" Mathematics 11, no. 13: 2963. https://doi.org/10.3390/math11132963
APA StyleKim, S., Wu, H., & Han, J.-H. (2023). Model-Based Simultaneous Multi-Slice (SMS) Reconstruction with Hankel Subspace Learning for Accelerated MR T1 Mapping. Mathematics, 11(13), 2963. https://doi.org/10.3390/math11132963

