S-LORAKS reconstruction for BUDA-circular-EPI data
Demonstration code for the NeuroImage paper, Liao C, et al. High-fidelity mesoscale in-vivo diffusion MRI through gSlider-BUDA and circular EPI with S-LORAKS reconstruction. NeuroImage. 2023;275:120168. https://www.sciencedirect.com/science/article/pii/S1053811923003191
The datasets presented in this repository are from a BUDA-circular-EPI acquisition with blip-up and -down shots.
Written by Congyu Liao, Uten Yarach and Tae Hyung Kim. Please feel free to contact Congyu Liao (cyliao@stanford.edu) if there's any question I can help answer.
Data download:
The download link of BUDA-circular EPI datasets is: https://drive.google.com/file/d/1MGC6FzQ17RXClumAo2o3K8Xfk_rw7esp/view?usp=sharing
The data size is ~ 128 MB, and the scan protocol of BUDA-circular-EPI is :
FOV: 220 mm ×220 mm
matrix size: 300×300
In-plane resolution: 0.72 mm ×0.72 mm
Slice thickness: 5 mm;
Number of slices: 16
Number of coils: 12 (32 coils compressed to 12 coils)
TR/TE = 5000/67 ms
Two interleaved shots with AP and PA phase-encoding
In-plane acceleration factor:4 per shot
no multiband acceleration
phase-encoding partial-Fourier factor: 5/8
readout partial-Fourier factor: 5/8
b= 0 & 1000 s/mm^2
SMS-BUDA-S-LORAKS download:
The multiband version of BUDA S-LORAKS is available: https://drive.google.com/drive/folders/1xiu5qpXeReIPwd-4ijAiDPiEQ6rzUY-q?usp=sharing
Tested with:
MATLAB 2019a
Please run "BDUA_SLORAKS/RUN_BUDA_S_LORAKS.m" to start reconstruction.
References:
If possible, please include the following citations if you find our reconstruction useful:
[1] Haldar JP. Low-rank modeling of local k-space neighborhoods (LORAKS) for constrained MRI. IEEE Trans Med Imaging. 2014
[2] Kim TH et al. LORAKS makes better SENSE: phase‐constrained partial fourier SENSE reconstruction without phase calibration. Magn Reson Med. 2017
[3] Liao C, et al. Distortion‐free, high‐isotropic‐resolution diffusion MRI with gSlider BUDA‐EPI and multicoil dynamic B0 shimming. Magn Reson Med. 2021
[4] Liao C, et al. High-fidelity mesoscale in-vivo diffusion MRI through gSlider-BUDA and circular EPI with S-LORAKS reconstruction. NeuroImage. 2023