The largest database of trusted experimental protocols

85 protocols using 3t magnetom trio

1

Multimodal Neuroimaging of Brain Function

Check if the same lab product or an alternative is used in the 5 most similar protocols
Data were acquired using a Siemens 3 T Magnetom Trio scanner (Siemens Medical Solutions, Erlangen, Germany) at the University of Pittsburgh Medical Center Magnetic Resonance Research Center using a 12-channel phased-array head coil. Structural images, for use in aligning fMRI data, were obtained using an MPRAGE sequence (TR = 2100 ms, flip angle = 8°, inversion time =1050 ms, voxel size = 1 × 1 mm, 192 contiguous 1-mm slices).
Functional images were acquired using an echoplanar sequence sensitive to BOLD contrast (T2*). Four runs of task-based fMRI data were collected (each run: three minutes, two seconds). The fMRI scan parameters for the task were the following: TR = 2000 ms, flip angle = 80°, voxel size = 1.71875 × 1.71875 mm in plane, 33 3-mm axial slices separated by gaps of 0.75 mm, 728 TRs. We collected five minutes of resting-state data with eyes closed while awake. rsfMRI parameters were the following: TR = 2000 ms, flip angle = 80°, voxel size = 1.719 × 1.719 mm in plane, 33 contiguous 3.75-mm axial slices, 150 TRs.
+ Open protocol
+ Expand
2

Multimodal Imaging of Glioblastoma

Check if the same lab product or an alternative is used in the 5 most similar protocols
CT and MR images of fifteen subjects diagnosed with brain tumors (glioblastoma) were retrospectively analyzed to create the template. The MR images were acquired on a 3T MAGNETOM Trio (Siemens Healthcare, Erlangen, Germany). T1-weighted 3D-MPRAGE MR images were acquired after administration of MR contrast agent (Magnevist) (see Supplementary Material for details).
All subjects underwent CT examinations within one month of their MRI scans (GE LightSpeed QX/i, Waukesha, WI). No surgical interventions were performed in the interval between the CT and MR imaging sessions. All subjects gave written informed consent and the local Institutional Review Board approved the study.
+ Open protocol
+ Expand
3

Dynamic 4D MRI Angiography Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
All healthy volunteers were scanned on a 3 T MAGNETOM Trio, a Tim system (Siemens Healthcare, Erlangen, Germany) under a technical development protocol agreed with local ethics and institutional committees. A 12 channel head RF receive coil was used in combination with the body coil for RF transmission.
Five volunteers (four male, one female; age range 25–38) were scanned with the full 4D protocol described above, and four of these were also scanned with the dynamic 2D protocol in the transverse view. A comparison of bSSFP and SPGR dynamic 2D protocols was made in one additional subject (male, 30), with flip angles and TR values as listed for the three regimes described in the simulations section. Further imaging parameters for these protocols are given in Supplementary Table 1.
Dynamic 2D VEPCASL bSSFP angiograms were also acquired in coronal and sagittal orientations in another additional subject (male, 25) with the slab thickness increased to 100 mm to encompass the majority of the intra‐ and extra‐cranial arteries.
+ Open protocol
+ Expand
4

Multimodal Brain Imaging Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Imaging was carried out using a 3 T MAGNETOM Trio (Siemens Healthcare, Malvern, PA, USA). A T1-weighted (MPRAGE) structural scan (voxel size 1×1×1 mm) was collected and used for registration purposes. A T2*-weighted, gradient echo planar image scan sequence (voxel size 3×3×3 mm) was used to collect functional imaging data during the word-cue and faces task.
+ Open protocol
+ Expand
5

Resting-State fMRI Acquisition Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
MRI data were collected on a Siemens 3 T MAGNETOM Trio equipped with a 12-channel head coil. We first acquired high-resolution T1-MPRAGE images (repetition time/echo time/flip angle = 6.2 s/3 ms/9°, 1 mm3 isotropic voxel size, field of view = 256 × 256 × 176 mm, 144 sagittal images). Resting state functional images were acquired by T2*-weighted fast echo planar imaging (repetition time/echo time/flip angle = 3.3 s/30 ms/90°, voxel size = 1.5 × 1.5 × 2.5 mm, 200 volumes acquired per subject) from 46 interleaved axial slices. The resting state functional MRI experiment consisted of a 10-min run in which participants were asked to relax with their eyes closed, without falling asleep. A field map was acquired to correct for echo planar image distortions induced by each subject’s individual magnetic susceptibilities. A quality control was systematically performed on the MRI data. In this control, we verified the wrapping or ghosting in the anatomical images. In addition, for the functional images, we verified the presence of susceptibility artefacts, spiking, ringing, or motion slice artefacts. All images with head motions superior to 3 mm during resting state were excluded from the analysis.
+ Open protocol
+ Expand
6

Resting-State fMRI Acquisition and Preprocessing

Check if the same lab product or an alternative is used in the 5 most similar protocols
Data acquisition, pre-processing, and analyses followed the same steps for the four resting state runs (rs1, rs2, rs3, and rs4). A Siemens 3-T Magnetom Trio MRI scanner (Siemens, Erlangen, Germany) with a 12 channel head coil was used. For anatomical details, a 3D high-resolution T1-weighted image was obtained first (magnetization prepared rapid gradient echo, time repetition/time echo = 2300/2.98 ms, 1 mm × 1 mm × 1.1 mm voxels, field of view (FOV) = 240 × 256, 160 sagittal slices), lasting 8 min. Then a field map was acquired to address local distortions.
Functional resting state data were acquired with a descending gradient echo planar imaging (EPI) pulse sequence for T2 - weighted images (repetition time = 3,000 ms; echo time = 30 ms; flip angle = 90°; 50 oblique axial slices each 2.8 mm thick; inter-slice gap = 0.028 mm; in-plane resolution 2.5 mm × 2.5 mm; 80 × 80 matrix, 160 volumes).
+ Open protocol
+ Expand
7

Neuroimaging Analysis of Choice Behavior

Check if the same lab product or an alternative is used in the 5 most similar protocols
Data were acquired using A Siemens 3T Magnetom Trio whole-body scanner at Rutgers University Brain Imaging Center (RUBIC), and analyzed using BrainVoyager QZ (v2.3, Brain Innovation). Choice and no-choice cues were compared in the previously defined ROIs and across the whole-brain.
+ Open protocol
+ Expand
8

fMRI Protocol for Cognitive Neuroscience

Check if the same lab product or an alternative is used in the 5 most similar protocols
Images were collected on a Siemens 3T Magnetom Trio scanner (Siemens Medical Systems, Erlangen, Germany). Using an echo-planar pulse sequence, 29 ascending slices (5mm thick with 10% gap) were acquired per volume (TR = 2 seconds; TE = 40ms; 64 x 64 matrix). Six dummy volumes were initially collected and a total of 144 experimental volumes (48 per global, local and match condition). An MR-compatible button press apparatus allowed for simultaneous recording of behavioral data. Stimuli were projected onto a screen located at the top end of the magnet bore, allowing participants to view stimuli via a mirror connected to the head coil. Presentation software (Neurobehavioral Systems, Inc.) controlled stimulus delivery, as well as logged button press responses.
+ Open protocol
+ Expand
9

MEG Data Acquisition and Processing Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
MEG data were recorded in a magnetically shielded room while participants lay supine, using a 151-channel CTF system (CTF MEG International Services LP, Coquitlam, BC, Canada). Data were sampled at 600 Hz with an online 0 to 150 Hz anti-aliasing filter, and to attenuate environmental noise a third-order spatial gradient was used. Fiducial coils situated at the left and right pre-auricular points and nasion monitored head location, and were replaced with radio-opaque markers for co-registration with T1-weighted MR images. Individual structural T1-weighted images were obtained on a Siemens 3 T MAGNETOM Trio with a 12-channel head coil (TR/TE = 2300/2.96 ms, FA = 9°, FOV = 240x256mm, # slices = 192, resolution = 1.0 mm isotropic) scanner, or on a PrismaFIT with a 20-channel head and neck coil (TR/TE = 1870/3.14 ms, FA = 9°, FOV = 240x256mm, # slices = 192, resolution = 0.8 mm isotropic) scanner, as a result of a scanner upgrade.
+ Open protocol
+ Expand
10

Concurrent TMS-MRI Experiment Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols
Concurrent TMS-MRI data were collected at the Henry H. Wheeler Jr. Brain Imaging Center at the University of California, Berkeley, using a Siemens 3T MAGNETOM Trio (Erlangen, Germany). TMS was delivered with the MR-compatible figure-8 Mri-B91 TMS coil produced by MagVenture (Farum, Denmark) with the MagPro X100 with MagOption running software version 7.1.1. 3D stereotaxic tracking, referred to as neuronavigation, was performed using Rogue Research’s BrainSight v2.2.11 (Montreal, Canada) with a Northern Digital Polaris Spectra infrared long-range camera (Waterloo, Ontario, Canada) and custom-made MR-compatible components. Here, we describe our experimental procedure in detail with consideration of alternatives (see Section “2.1 Equipment and procedures”), describe signal artifact sources inherent to concurrent TMS-fMRI (see Section “2.2 Signal artifacts in concurrent TMS-fMRI”), explain our artifact removal approach in post-processing (see Section “2.3 Preprocessing and artifact removal during analysis”), and present an experiment that illustrates these considerations (see Section “2.4 Experimental design”).
+ Open protocol
+ Expand

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

Sign up now

Revolutionizing how scientists
search and build protocols!