Protocol - Three-Dimensional (3D) Magnetization-Prepared RApid Gradient Echo (MP-RAGE)

Description

An image that captures the high tissue contrast in the brain and provides high spatial resolution of the whole brain in a short scan time.

Specific Instructions

Collect two Magnetization-Prepared RApid Gradient Echo (MPRAGE) sequences of 4 minutes ranges for a total 8 minutes duration. Sequence must be conducted with full-brain coverage, using a slice thickness or resolution of, at most, 1 x 1 x 1 mm. Repetition time/echo time (TR/TE) flexible: repetition and echo times are flexible because they will vary according to the vendor/manufacturer of the scanner. No vendor or manufacturer is recommended; studies have used scanners from multiple manufacturers and obtained comparable data. Any 3T platform is recommended using T₁-weighted imaging. The Early Psychosis Working Group also recommends using isotropic voxels, with the minimal voxel size and maximal number of directions to minimize burden and maximize data. The data will offer insights into first-episode psychosis and stimulate hypothesis generation.

Data should be collected using volume head coil, preferably with multichannel capability. Research sites might need to repeat the sequence for a lower performance gradient to match their results to those of other sites. This extra sequence will be important for data comparability across sites.

Availability

Limited Availability

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Protocol

TA: 6:03

PAT: 2

Voxel size: 1.0 x 1.0 x 1.0 mm

Rel. SNR: 1.00

Properties

Prio Recon Before measurement After measurement	.......................................Off
Load to viewer	.......................................On
Inline movie	.......................................Off
Auto store images	.......................................On
Load to stamp segments	.......................................Off
Load images to graphic segments	.......................................Off
Auto open inline display	.......................................Off
Load to stamp segments	.......................................Off
Load images to graphic segments	.......................................Off
Auto open inline display	.......................................Off
Start measurement without further preparation	.......................................On
Wait for user to start	.......................................On
Start measurements	.......................................single

Routine

Slab group 1 Slab Dist. Factor Position Orientation Phase enc. dir. Rotation	.......................................1 .......................................50% .......................................L0.0 A14.2 H0.7 .......................................S > C0.2 .......................................A >> P .......................................0.00 deg
Phase oversampling	.......................................0%
Slice oversampling	.......................................0.0%
Slices per slab	.......................................176
FoV read	.......................................256 mm
FoV phase	.......................................100.0%
Slice thickness	.......................................1.00 mm
TR	.......................................2530 ms
TE 1	.......................................3.31 ms
TE 2	.......................................6.99 ms
Averages	.......................................1
Concatenations	.......................................1
Filter	.......................................Prescan Normalize
Coil elements	.......................................HEA;HEP

Contrast

Magn. preparation	.......................................Non-sel. IR
TI	.......................................1100 ms
Flip angle	.......................................7.0 deg
Fat suppr.	.......................................None
Water suppr.	.......................................None

Averaging mode	.......................................Long term
Reconstruction	.......................................Magnitude
Measurements	.......................................1
Multiple series	.......................................Each measurement

Resolution

Base resolution	.......................................256
Phase resolution	.......................................100%
Slice resolution	.......................................100%
Phase partial Fourier	.......................................Off
Slice partial Fourier	....................................... Off
Interpolation	.......................................Off

PAT mode	.......................................GRAPPA
Accel. factor PE	.......................................2
Ref. lines PE	.......................................32
Matrix Coil Mode	.......................................Auto (Triple)
Reference scan mode	.......................................Integrated

Image Filter	.......................................Off
Distortion Corr.	.......................................Off
Unfiltered images	.......................................Off
Prescan Normalize	.......................................On
Normalize	.......................................Off
B1 filter	.......................................Off
Raw filter	.......................................Off
Elliptical filter	.......................................Off

Geometry

Multi-slice mode	.......................................Single shot
Series	.......................................Interleaved

System

Body	.......................................Off
HEP	.......................................On
HEA	.......................................On

Positioning mode	.......................................FIX
Table position	.......................................H
Table position	.......................................0 mm
MSMA	.......................................S - C - T
Sagittal	.......................................R >> L
Coronal	.......................................A >> P
Transversal	.......................................F >> H
Save uncombined	.......................................Off
Coil Combine Mode	.......................................Adaptive Combine
AutoAlign	.......................................Head > Brain
Auto Coil Select	.......................................Default

Shim mode	.......................................Standard
Adjust with body coil	.......................................Off
Confirm freq. adjustment	.......................................Off
Assume Silicone	.......................................Off
? Ref. amplitude 1H	.......................................0.000 V
Adjustment Tolerance	.......................................Auto
Adjust volume
Position	.......................................L0.0 A14.2 H0.7
Orientation	.......................................S > C0.2
Rotation	.......................................0.00 deg
F >> H	.......................................256 mm
A >> P	.......................................256 mm
R >> L	.......................................176 mm

Physio

1st Signal/Mode

.......................................None

Dark blood

.......................................Off

Inline

Subtract	.......................................Off
Std-Dev-Sag	.......................................Off
Std-Dev-Cor	.......................................Off
Std-Dev-Tra	.......................................Off
Std-Dev-Time	.......................................Off
MIP-Sag	.......................................Off
MIP-Cor	.......................................Off
MIP-Tra	.......................................Off
MIP-Time	.......................................Off
Save original images	.......................................On

Sequence

Introduction	.......................................On
Dimension	.......................................3D
Elliptical scanning	.......................................Off
Asymmetric echo	.......................................Off
Contrasts	.......................................2
Bandwidth 1	.......................................195 Hz/Px
Bandwidth 2	.......................................651 Hz/Px
Flow comp. 1	.......................................No
Flow comp. 2	.......................................No
Echo spacing	.......................................10.1 ms

RF pulse type	.......................................Fast
Gradient mode	.......................................Fast
Excitation	.......................................Non-sel.
RF spoiling	.......................................On

Readout polarity	.......................................Positive
Readout trajectory	.......................................Bipolar
Add. scale factor	.......................................8.0
Gradient spoiling	.......................................Integral
Gradient moment factor	.......................................3.0
Siemens reconstruction	.......................................On
Save raw k-space data	.......................................Off
Averaging	.......................................RMS

Personnel and Training Required

All sites collecting Magnetization-Prepared RApid Gradient Echo (MP-RAGE) data must have a PhD-level magnetic resonance (MR) physicist on site for implementation, assistance with acquisition (not required to be present at every scan, but required for ongoing quality control [QC] and monitoring), and data analysis. The functional magnetic resonance imaging (fMRI) technician collecting data should be trained in the administration of functional and structural MRI scans with respect to positioning and instructing the subject (e.g., not to move), running the scanner console, and assessing whether appropriate data were collected.

Equipment Needs

Magnetization-Prepared RApid Gradient Echo (MP-RAGE) requires a 3T or higher field-strength magnetic resonance imaging (MRI) scanner.

Requirements

Requirement Category	Required
Major equipment	Yes
Specialized training	Yes
Specialized requirements for biospecimen collection	No
Average time of greater than 15 minutes in an unaffected individual	No

Mode of Administration

Complex instrumentation-based assessment

Lifestage

Adolescent, Adult, Senior

Participants

Adolescents and adults, ages 12 and older

Selection Rationale

Gradient echo is faster than spin echo, uses less power, and is more commonly used. It provides data quickly, and a scan lasting 8-10 minutes provides maximal quality. Magnetization-Prepared RApid Gradient Echo (MPRAGE) is widely available. 3T imaging is superior to 1.5T imaging, and 3T scanners have been cleared by the U.S. Food and Drug Administration (FDA).

Language

English

Standards

Standard	Name	ID	Source
Human Phenotype Ontology	Abnormality of brain morphology	HP:0012443	HPO
Human Phenotype Ontology	Abnormal brainstem MRI signal intensity	HP:0012747	HPO

Derived Variables

None

Process and Review

Not applicable.

Protocol Name from Source

Three-Dimensional (3D) Magnetization-Prepared RApid Gradient Echo (MP-RAGE)

Source

Han, X., Jovicich, J., Salat, D., Kouwe, A. V., Quinn, B., Czanner, S., . . . Fischl, B. (2006). Reliability of MRI-derived measurements of human cerebral cortical thickness: The effects of field strength, scanner upgrade and manufacturer. NeuroImage, 32(1), 180-194. doi:10.1016/j.neuroimage.2006.02.051

General References

Dazzan, P., Arango, C., Fleischacker, W., Galderisi, S., Glenthoj, B., Leucht, S., . . . Mcguire, P. (2015). Magnetic resonance imaging and the prediction of outcome in first-episode schizophrenia: A review of current evidence and directions for future research. Schizophrenia Bulletin, 41(3), 574-583. doi:10.1093/schbul/sbv024

Jovicich, J., Marizzoni, M., Sala-Llonch, R., Bosch, B., Bartrés-Faz, D., Arnold, J., . . . Frisoni, G. B. (2013). Brain morphometry reproducibility in multi-center 3T MRI studies: A comparison of cross-sectional and longitudinal segmentations. NeuroImage, 83, 472-484. doi:10.1016/j.neuroimage.2013.05.007

Protocol ID

660501

Variables

Export Variables

Variable Name	Variable ID	Variable Description	dbGaP Mapping

	PX660501000000	Protocol 660501 - proprietary. Check DCW for more contact. show less	N/A

Early Psychosis Translational Research

Measure Name

Brain Anatomical Imaging

Release Date

January 17, 2017

Definition

A neuroimaging assessment of the physical attributes of the brain as produced by three-dimensional (3D) Magnetization-Prepared RApid Gradient Echo (MP-RAGE) equipment.

Purpose

Images collected with the sequence are used to detect pathological changes of the brain, estimate regional brain volume abnormalities associated with brain functions, assess brain development, and evaluate treatment or therapeutic responses.

Keywords

early psychosis, Magnetization-Prepared RApid Gradient Echo, MP-RAGE, magnetic resonance imaging, MRI, neuroimaging

Measure Protocols

Protocol ID	Protocol Name
660501	Three-Dimensional (3D) Magnetization-Prepared RApid Gradient Echo (MP-RAGE)

Publications

There are no publications listed for this protocol.