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598 protocols using 12 channel head coil

1

Multimodal Neuroimaging of Brain Structure and Function

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A 3T Siemens Tim Trio MR scanner with a Siemens 12-channel head coil (Siemens, Munich, Germany) was used for obtaining MRI scans in 2006–07. Image acquisition and analyses have been previously described.21 (link) Magnetization-prepared rapid gradient echo (MPRAGE) images were acquired to obtain GMV and white matter hyperintensities (WMH) volume. Atrophy of total brain was computed as the ratio of GMV of total brain by intracranial volume. Gray matter volume of regions of interest (ROI) were defined a priori, and included the medial temporal lobe (hippocampus, parahippocampus, entorhinal cortex), basal ganglia (caudate, putamen, pallidum, thalamus), posterior parietal cortex (superior and inferior parietal lobule), cingulate cortex (anterior, middle, and posterior portion), and cerebellum, based on previous literature demonstrating regional associations with mobility and cognitive function.22 (link)–24 (link) The neuroanatomical boundaries of these regions have been previously published.25 WMH volume was for total brain quantified from T2-weighted fluid-attenuated inversion recovery images with a semi-automated method, as previously described.26 (link)
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2

Functional MRI Acquisition Protocol

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MRI measurements were performed on a 3 Tesla (3T) TIM Trio scanner and a Siemens 12-channel head coil (Siemens Medical Solutions, Erlangen, Germany). Head movements were restricted using foam pillows. Functional data were acquired via a phase corrected blipped gradient echo, single shot echo planar imaging sequence (TE/TR = 42/2000 ms, 96×96 matrix, 210 mm square FOV, 20 axial slices, slice thickness = 4 mm, slice gap = 1 mm, interleaved slice acquisition).
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3

Resting-state fMRI Acquisition Protocol

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To check the validity of the approach, we used a distinct dataset comprising 25 healthy control subjects (age between 18 and 33 years old, mean 26.2 (STD 4.8), 11 females, 14 males). The fMRI acquisition procedure was described in detail in (Schirner et al., 2013). In brief, the resting state fMRI time signals (BOLD‐sensitive, T2*‐weighted, TR = 1,940 ms, TE = 30 ms, FA = 78°, 32 transversal slices (3 mm), voxel size 3 × 3 × 3 mm3, FOV = 192 mm, 64 × 64 matrix) of the subjects were acquired at Berlin Center for Advanced Imaging, Charité University Medicine, Berlin, Germany. MRI was performed using a 3 T Siemens Trim Trio MR scanner and a 12‐channel Siemens head coil. Specifications for the employed sequences can be found in Ritter et al. [2009].
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4

Multimodal fMRI and EEG Neuroimaging Protocol

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We used a 3 T Siemens Tim Trio MR scanner with a 12‐channel Siemens head coil. Every scan session started with a localizer sequence (TR 20 ms, TE 5 ms, 3 slices [8 mm], voxel size 1.9 × 1.5 × 8.0 mm, FA 40°, FoV 280 mm, 192 matrix) followed by an anatomical T1‐weighted scan (TR/TE 1900/2.52 ms, FA 9°, 192 sagittal slices [1.0 mm], voxel size 1 × 1 × 1 mm3, FoV 256 mm, 256 matrix), an anatomical T2‐weighted scan (TR 2640 ms, TE1 11 ms, TE2 89 ms, 48 slices [3.0 mm], voxel size 0.9 × 0.9 × 3 mm, FoV 220 mm, 256 matrix). Afterwards, the EEG was prepared; fMRI (BOLD‐sensitive, T2*‐weighted, TR/TE 1940/30 ms, FA 78°, 32 transversal slices [3 mm], voxel size 3 × 3 × 3 mm, FoV 192 mm, 64 matrix) was recorded simultaneously to the EEG.
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5

Multimodal Brain Connectome Analysis

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Resting-state MRI, diffusion-weighted MRI, and functional MRI were performed on a 3 Tesla Siemens Tim Trio MR scanner using a 12-channel Siemens head coil. Detailed information on the data acquisition parameters can be found in Schirner et al. (2015) (link). We did not process the raw data. The data were pre-processed, and structural connectome was generated previously, using the pipeline by Schirner et al. (2015) (link).The cortical gray matter was parcellated into 34 regions of interest (ROIs) in each hemisphere following the Desikan-Killiany parcellation (Desikan et al. (2006) (link). The ROIs with their abbreviations are listed in Table S1 of the Supplemental Material.
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6

High-resolution MRI and Resting-state fMRI Protocol

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Imaging data were collected at the University of Pittsburgh Magnetic Resonance Research Center (MRRC) using a 3T Siemens Trio machine, and 12-channel Siemens head coil. A standard high-resolution T1-weighted volumetric magnetization prepared rapid gradient echo scans (MPRAGE) sequence was acquired in axial orientation (160 slices, 256×240, 1mm isotropic). For the resting-state scan, T2*-weighted BOLD acquisition was done using a gradient-echo echo planar imaging sequence: TR=2,000 msec, TE=34 msec, matrix=128×128×29, voxel size=2×2×3 mm3, oblique axial acquisition, integrated parallel acquisition techniques=2. Images were acquired over 5 minutes (150 volumes). Subjects were instructed to lie still with their eyes open, look at a fixation cross, think of nothing in particular, and not to fall asleep.
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7

MRI-Guided Brain Injection Localization

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To identify the site of the injections, anatomical MR images of the brain were acquired in a Siemens TIM TRIO 3T horizontal bore scanner. The animals were sedated with Ketamine (10 mg/Kg) and Dexdomitor (0.02 mg/kg) and were intubated and maintained on isoflurane during the scans. The scans were performed using a standard 12 channel Siemens head coil. Anatomical scans were acquired with an MPRAGE sequence using the following parameters: TR = 1800 ms, TE = 3.55 ms, FOV = 179, slice thickness: 0.7 mm, in-slice resolution: 0.5 mm.
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8

Multimodal Brain Imaging of Healthy Adults

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Structural data from DTI and resting-state BOLD signal time series were acquired for 24 healthy participants (age between 18 and 33 years old, mean 25.7, 12 females, 12 males). A full description of the generation of SC and FC matrices from those data can be found in ref. 17 (link). Here, we provide a quick overview of the employed methods. Empirical data were acquired at Berlin Center for Advanced Imaging, Charité University Medicine, Berlin, Germany. For simultaneous EEG-fMRI55 (link), 56 , participants were asked to stay awake and keep their eyes closed. No other controlled task had to be performed. In addition, a localizer, DTI and T2 sequence were recorded for each participant. MRI was performed using a 3 Tesla Siemens Trim Trio MR scanner and a 12-channel Siemens head coil. Specifications for the employed sequences can be found in ref. 56 . For each participant anatomical T1-weighted scans were acquired. DTI and GRE field mapping were measured directly after the anatomical scans. Next, functional MRI (BOLD-sensitive, T2*-weighted, TR 1940 ms, TE 30 ms, FA 78°, 32 transversal slices (3 mm), voxel size 3 × 3 × 3 mm, FoV 192 mm, 64 matrix) was recorded simultaneously to the EEG recording.
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9

3T MRI Structural Brain Imaging

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Magnetic resonance imaging was conducted on a 3.0 T Trio scanner (Siemens, Erlangen, Germany) using a 12-channel Siemens head coil. The structural T1-weighted magnetisation prepared gradient-echo images were acquired using the following parameters: repetition time (TR) 2250 ms; echo time (TE) 3.03 ms; field of view (FOV) 256 mm; 176 sagittal slices of 1 mm thickness; flip angle = 9°, voxel size 1 × 1 × 1 mm. We screened MR images visually for artefacts and to exclude pathology.
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10

Multimodal Brain Connectome Analysis

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Resting-state MRI, diffusion-weighted MRI, and functional MRI were performed on a 3 Tesla Siemens Tim Trio MR scanner using a 12-channel Siemens head coil. Detailed information on the data acquisition parameters can be found in Schirner et al. (2015) (link). We did not process the raw data. The data were pre-processed, and structural connectome was generated previously, using the pipeline by Schirner et al. (2015) (link).The cortical gray matter was parcellated into 34 regions of interest (ROIs) in each hemisphere following the Desikan-Killiany parcellation (Desikan et al. (2006) (link). The ROIs with their abbreviations are listed in Table S1 of the Supplemental Material.
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