Structural and Diffusion weighted imaging was performed at the Cape Universities Brain Imaging Centre on a 3T Siemens Allegra scanner within 7 days of neurocognitive assessment. For the diffusion-weighted imaging a single-channel transmit-receive head coil was used with the following parameters: TR = 8800ms, TE = 88ms, field-of-view of 220mm, 1.8 x 1.8 x 2.0 mm3 image resolution, 65 slices, 0% distance factor and 2x Generalized Autocalibrating Partial Parallel Acquisition (GRAPPA) acceleration. Images were acquired in an axial orientation with 30 gradient directions at b = 1000mm/s2, and 3 directions with b = 0mm/s2. The acquisition was repeated 3 times to allow for redundancy in data. A multi-echo Magnetization Prepared Rapid Acquisition Gradient Echo (MPRAGE) T1-weighted image was acquired with the following parameters: FOV = 256 x 256mm, TR = 2530ms, TE = 1.53/3.21/4.89/6.57ms, TI = 1100ms, flip angle = 7°, 144 slices, in-plane resolution = 1.3 x 1.0mm2 and slice thickness of 1.0mm[4 (link)].
Allegra scanner
Manufactured by Siemens
Sourced in Germany, United States
The Allegra scanner is a laboratory equipment product from Siemens. It is a magnetic resonance imaging (MRI) system designed for research applications. The Allegra scanner provides high-quality imaging capabilities for use in various research settings.
Automatically generated - may contain errors
78 protocols using allegra scanner
1
Structural and Diffusion MRI Protocol
2
MRI Acquisition Protocols for NF1 and Control
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
NF1 patient MRI data were acquired on a Philips Achieva 3T MRI scanner (Best, NL) using a 32-channel receive-only head coil. 3D T1-weighted MRI were acquired sagittally with a magnetization-prepared rapid acquisition gradient-echo sequence (MPRAGE; time repetition, TR = 8.4 ms; time echo, TE = 3.77 ms; flip angle = 8o, inversion time = 1,150 ms, 0.94 mm in-plane resolution and 150 slices of 1 mm).
Control data from HCa and HCb studies were acquired on a 3T Siemens Allegra scanner at Brain Research Centre, University of Pittsburgh. Structural data were acquired using sagittal 3D magnetization prepared rapid gradient-echo (MPRAGE; HCa (Padmanabhan et al. 2011 (link)): TR = 1.5 s, TE = 25 ms, flip angle = 70o, 224 slices of 0.7825 mm; HCb (Geier et al. 2010 (link)): TR = 1.5 s, TE = 25 ms, flip angle = 70o, 192 slices of 1 mm).
Control data from HCa and HCb studies were acquired on a 3T Siemens Allegra scanner at Brain Research Centre, University of Pittsburgh. Structural data were acquired using sagittal 3D magnetization prepared rapid gradient-echo (MPRAGE; HCa (Padmanabhan et al. 2011 (link)): TR = 1.5 s, TE = 25 ms, flip angle = 70o, 224 slices of 0.7825 mm; HCb (Geier et al. 2010 (link)): TR = 1.5 s, TE = 25 ms, flip angle = 70o, 192 slices of 1 mm).
3
High-Resolution T1-Weighted Brain Imaging
4
Neuroimaging Protocol for Orbitofrontal Cortex and Amygdala
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
The study was conducted at the Wellcome Trust Centre for Neuroimaging at University College London using a 3T Siemens Allegra scanner. Functional scans used a gradient echo sequence optimised for orbitofrontal cortex and amygdala coverage (Weiskopf et al., 2007 (link)). Time of repetition (TR) = 2.52 s, time of echo (TE) = 30 ms, flip angle (FA) = 90°, matrix = 64 × 64, field of view (FOV) = 192 × 192 mm2, slice thickness = 2 mm. Forty two axial slices (–30° tilt) were sampled for whole brain coverage, in-plane resolution = 3 × 3 mm. An MPRAGE sequence was used to acquire structural images after session 3 which comprised 1-mm-thick axial slices parallel to the anterior commissure/posterior commissure plane. Imaging data were analyzed with SPM5 (Wellcome Trust Centre for Neuroimaging). Images were realigned with the first volume (after discarding six dummy volumes) and unwarped, normalized to the the Montreal Neurological Institute reference template, resampled to 2 × 2 × 2 mm3 voxels, and spatially smoothed (8 mm full width at half-maximum).
5
High-resolution Structural and Functional MRI
6
3T MRI Structural Imaging Protocol
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
MRI data were acquired in a 3-T Siemens Allegra scanner. The protocol for the
structural scans consisted of a three-plane sagittal localizer from which
all other structural scans were prescribed. The following structural scans
were acquired: axial 3D-MPRAGE (TR = 2500 ms, TE = 4.4 ms, field of view
(FOV) = 21 cm, matrix size = 256 × 256 yielding 208 slices with
thickness = 0.82 mm); Turbo spin echo T2-weighted axial (TR = 5380 ms,
TE = 99 ms, FOV = 18.3 cm × 21 cm, matrix size = 512 × 448, turbo
factor = 11, 28 slices, thickness = 3 mm, skip 1 mm).
structural scans consisted of a three-plane sagittal localizer from which
all other structural scans were prescribed. The following structural scans
were acquired: axial 3D-MPRAGE (TR = 2500 ms, TE = 4.4 ms, field of view
(FOV) = 21 cm, matrix size = 256 × 256 yielding 208 slices with
thickness = 0.82 mm); Turbo spin echo T2-weighted axial (TR = 5380 ms,
TE = 99 ms, FOV = 18.3 cm × 21 cm, matrix size = 512 × 448, turbo
factor = 11, 28 slices, thickness = 3 mm, skip 1 mm).
7
Multimodal Neuroimaging of Brain Structure
8
Resting-state fMRI Acquisition Protocol
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
The resting-state fMRI data of subjects were obtained from the ABIDE database gathered by NYU Langone Medical Center [31 (link)]. fMRI images were collected using a 3 T Siemens Allegra scanner for 6 minutes. Participants were asked to relax and stare at the white cross displayed in the middle of a screen with a black background. The following is the scan acquiring procedure: TR = 2000 ms, TE = 15 ms, 33 slices with thickness = 4.0 mm, FOV = 240 mm, flip angle = 90.
9
Predicting Autism from Resting-State fMRI Data
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
This study obtained fMRI data from a publicly available Autism Brain Imaging Data Exchange (ABIDE) database (Di Martino et al., 2014 (link)). For the following analysis and prediction, we used 75 ASD patients and 102 healthy controls with ages ranging from 6.5 to 39.1 years old, scanned at New York University Langone Medical Center. ASD subjects were included based on the autism criteria in Diagnostic and Statistical Manual of Mental Disorders, 4th Edition, Text Revision (DSM-IV-TR) (American Psychiatric Association, 2000 ). Additionally, these subjects were acquired with a 3-T Siemens Allegra scanner. The main parameters of functional images for the resting-state are as follows: repetition time (TR)/Echo time (TE) = 2000/15 ms, flip angle = 90°, number of slices = 33, slice thickness = 4 mm, and voxel size = 3.0 × 3.0 × 4.0 mm3. T1-weighted images were acquired with the following parameters: TR/TE = 2530/3.25 ms, flip angle = 7°, slice thickness = 1.33 mm, and voxel size = 1.3 × 1.0 × 1.3 mm3. More details on the subject collection, exclusion criteria, and data parameters can be obtained from the website.1
10
Neuroimaging Protocol for Sensory-Motor Cortex
About PubCompare
Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.
We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.
However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.
Ready to get started?
Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required
Revolutionizing how scientists
search and build protocols!