Constrained optimized water suppression for 1H MRS of Metabolites and Macromolecules in 3 brain regions at 3T using sLASER

Contact: Kay Igwe, M.S. (kci2104 [at] columbia [dot] edu)

Overview

These data were collected as part of a study to test the efficacy of COWS, a new water suppression software package, for acquisition of both metabolite and macromolecule spectra. COWS sLASER localization.

Data types included are defaced T₁-weighted 3D structural MRI images and single-voxel sLASER MRS data in the prefrontal cortex, posterior frontal lobe, and occipital lobe.

Methods

Participants

Ten healthy adults (5 women, 5 men, mean age = 31 ± 9 years).

Data from all 10 participants are available in this repository.

Scanning

One 1-hr scan sessions for each participant with 2 T1 scans, one pre-MRS T1 scans used for voxel localization and a post-MRS T1 scan for measuring degreee of participant movement.

MR protocol

MR data were acquired at Zuckerman Mind Brain Behavior Institute at Columbia University on a MAGNETOM Prisma 3 T (Siemens Healthineers, Erlangen, Germany) using a ¹H 32-reeive channel RF phased-array head and neck coil.

MRI

3D T₁-weighted MPRAGE structural MRI acquisition parameters:

• MPRAGE
• TE/TR/TI = 2.26/2300/900 ms
• Flip angle = 8°
• Voxel resolution = 1 × 1 × 1 mm³
• FOV = 256 × 192 x 256 mm³
• Matrix size = 256 × 192 x 256
• Slices = 192

MRS

General acquisition parameters:

• Volumes of interest = prefrontal cortex, posterior frontal lobe, and occipital lobe
• Voxel resolution = 25 × 25 × 25 mm³
• Spectral width = 4000 Hz
• Number of points = 2048
• TE/TR = 26/2000 ms
• Number of transients (for Metabolite Scans) = 32
• Number of transients (for Macromolecule Scans) = 64
• Manual first-order B0 shimming using the Siemens Prisma VE11C native active shimming tool

MRS:

• Metabolite acquisition: Ace, Ala, Asc, Asp, Ch, Cr, GABA, Glc, Glu, Gln, Gly, GPC, GSH, Lac, mI, NAA, NAAG, PCr, PCh, PE, sI, and Tau
• Macromolecule ONLY acquisition
• Water reference acquisition
• Acquisition: sLASER
• COWS(7;236) water suppression: Water suppression scheme with 7 pulses that takes 236 ms to complete
• COWS(12;626) water suppression: Water suppression scheme with 12 pulses that takes 626 ms to complete
• VAPOR(12;626) water suppresion: Water suppression scheme with 7 pulses that takes 626 ms to complete

SPECTRA and MRI Per Participant

DAT FILE SPECTRA (RAW) Each *.dat file contains both the spectrum and associated water reference

1. sub-*_acq*-01_svs_slaser_vapor7_metab_PFC.dat
2. sub-*_acq*-02_svs_slaser_vapor7_mm_PFC.dat
3. sub-*_acq*-03_svs_slaser_cows7_metab_PFC.dat
4. sub-*_acq*-04_svs_slaser_cows7_mm_PFC.dat
5. sub-*_acq*-05_svs_slaser_cows12_metab_PFC.dat
6. sub-*_acq*-06_svs_slaser_vapor7_metab_Occipital.dat
7. sub-*_acq*-07_svs_slaser_vapor7_mm_Occipital.dat
8. sub-*_acq*-08_svs_slaser_cows7_metab_Occipital.dat
9. sub-*_acq*-09_svs_slaser_cows7_mm_Occipital.dat
10. sub-*_acq*-10_svs_slaser_cows12_metab_Occipital.dat
11. sub-*_acq*-11_svs_slaser_vapor7_metab_Parietal.dat
12. sub-*_acq*-12_svs_slaser_vapor7_mm_Parietal.dat
13. sub-*_acq*-13_svs_slaser_cows7_metab_Parietal.dat
14. sub-*_acq*-14_svs_slaser_cows7_mm_Parietal.dat
15. sub-*_acq*-15_svs_slaser_cows12_metab_Parietal.dat

MAT FILE SPECTRA

Prefrontal Cortex

1. Metabolite Spectrum - using COWS(7;236) Water Suppression
2. Metabolite Water Scan - after COWS(7;236)
3. Macromolecule Spectrum - using COWS(7;236) Water Suppression
4. Macromolecule Water Scan - after COWS(7;236)
5. Metabolite Spectrum - using COWS(12;626) Water Suppression
6. Metabolite Water Scan - after COWS(12;626) Metabolite Scan
7. Metabolite Spectrum - using VAPOR(7;626) Water Suppression
8. Metabolite Water Scan - after VAPOR(7;626) Metabolite Scan
9. Macromolecule Spectrum - using VAPOR(7;626) Water Suppression
10. Macromolecule Water Scan - after VAPOR(7;626) Metabolite Scan

Posterior Frontal Lobe

1. Metabolite Spectrum - using COWS(7;236) water suppression
2. Metabolite Water Scan - after COWS(7;236)
3. Macromolecule Spectrum - using COWS(7;236) water suppression
4. Macromolecule Water Scan - after COWS(7;236)
5. Metabolite Spectrum - using COWS(12;626) water suppression
6. Metabolite Water Scan - after COWS(12;626) metabolite scan
7. Metabolite Spectrum - using VAPOR(7;626) water suppression
8. Metabolite Water Scan - after VAPOR(7;626) metabolite scan
9. Macromolecule Spectrum - using VAPOR(7;626) water suppression
10. Macromolecule Water Scan - after VAPOR(7;626) metabolite scan

Occipital Lobe

1. Metabolite Spectrum - using COWS(7;236) water suppression
2. Metabolite Water Scan - after COWS(7;236)
3. Macromolecule Spectrum - using COWS(7;236) water suppression
4. Macromolecule Water Scan - after COWS(7;236)
5. Metabolite Spectrum - using COWS(12;626) water suppression
6. Metabolite Water Scan - after COWS(12;626) metabolite scan
7. Metabolite Spectrum - using VAPOR(7;626) water suppression
8. Metabolite Water Scan - after VAPOR(7;626) metabolite scan
9. Macromolecule Spectrum - using VAPOR(7;626) water suppression
10. Macromolecule Water Scan - after VAPOR(7;626) metabolite scan

MRI FILES Each T1w MPRAGE brain scan was brain extracted using HDBET (https://github.com/MIC-DKFZ/HD-BET).

Before MRS: This is the T1w MPRAGE scan for voxel placement

1. sub-*/anat/sub-*_T1w.nii.gz

After MRS: Second T1w MPRAGE scan performed within the same session for subject movement calculations after the MRS scans.

1. derivatives/mrs_mat/sub-*_mat/sub-*_T1w.nii.gz

SOFTWARE and FILE TYPES Included

1. COWS (Constrained optimized water suppression)
   • SOFTWARE: https://inventions.techventures.columbia.edu/technologies/cows-water--CU21111
   • Manuscript: Constrained optimized water suppression for ₁H MR spectroscopy https://doi.org/10.1002/mrm.30550
2. INSPECTOR Compatible -> .MAT
   • SOFTWARE: https://inventions.techventures.columbia.edu/technologies/inspector-magnetic--CU17130
   • Manuscript: INSPECTOR: free software for magnetic resonance spectroscopy data inspection, processing, simulation and analysis https://doi.org/10.1038/s41598-021-81193-9
3. TWIX File format -> .DAT