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40 protocols using directdrive console

1

High-Resolution 7T MRI Volumetric Analysis

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Before imaging, all brains were rinsed with saline and embedded in perfluoropolyether (FOMBLIN). T2-weighted MRI was performed using a horizontal 7 T magnet with an inner bore diameter of 160 mm (Magnex Scientific Ltd., Oxford, UK) and equipped with an actively shielded Magnex gradient set (max. gradient strength: 400 mT/m, bore 100 mm) interfaced to a Varian DirectDrive console. Linear RF volume-coil was used for transmission and surface-phased array coil for receiving (Rapid Biomedical GmbH, Rimpar, Germany).
For determination of total brain, striatal and cortical volumes, T2-weighted continuous multi-slice images covering the whole brain (number of slices, 21) were acquired using fast spin-echo sequence with TR = 4500 ms, echo train length ETL = 4, effective TE = 36 ms, a matrix size of 512 × 256, FOV of 30 × 30 mm2, and a slice thickness of 0.6 mm. The average of 4 measurements was taken. The coronal images were analyzed for total brain, striatal, and cortical volumes using an in-house written analysis program run under MATLAB (The MathWorks Inc, Natick, MA, USA) environment.
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2

Ex Vivo DTI of Traumatic Brain Injury in Rats

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For ex vivo DTI, brains from control rats and rats with TBI were scanned in a vertical 9.4 T/89 mm magnet (Oxford Instruments PLC, Abingdon, UK) interfaced to a DirectDrive console (Varian Inc., Palo Alto, CA, USA) using a quadrature volume RF-coil (diameter 20 mm; Rapid Biomedical GmbH, Rimpar, Germany) as the transmitter and receiver. Data were acquired using a three-dimensional (3D) spin echo sequence with two refocusing pulses (TR = 1 s, TE = 60 ms, data matrix 256 × 74 × 56, FOV 29.3 × 17 × 12.8 mm3). To compensate for long-duration constant eddy currents, monopolar diffusion gradient pairs with opposite polarity for each pair were placed around each refocusing pulse. Six 3D images with diffusion weighting (diffusion time = 17 ms, b-value = 1000 s/mm2) in six uniformly distributed directions (Basser and Pierpaoli, 1998 (link)) and one image without diffusion weighting were obtained. Two averages were acquired, leading to a total scanning time of 16 h/brain. This type of protocol produces high signal-to-noise images, making accurate estimation of DTI metrics possible from only six orthogonal diffusion directions. The temperature variation of the sample during the DTI measurement period was less than ±0.25°C in separate experiments under identical conditions.
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3

NMR Spectroscopy of Phosphorus and Carbon

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NMR spectra were acquired with an Oxford 9.4 Tesla 8.9-cm-bore magnet (Oxford Instruments, Abingdon, UK) interfaced to a 400 MHz Varian DirectDrive Console (Palo Alto, CA, USA). A 20-mm broadband liquids probe (Varian) was used to acquire 31P and 13C spectra at 162.1 and 100.7 MHz, respectively. 31P spectra were acquired with 60° pulses, a repetition time of 1 s, 4096 points, and a spectral width of 15,000 Hz. 13C spectra were acquired with a single 12° pulse, a repetition time of 3 s, 8192 points, and a spectral width of 25,000 Hz. WALTZ-16 decoupling was used during signal acquisition to eliminate 1H couplings.
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4

Noninvasive Imaging of FUS-Induced Brain Heating

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MR thermometry was performed to noninvasively image FUS-induced temperature rise in the mouse brain in vivo. The FUS transducer used in the above experiment was integrated with a 4.7 T small animal MRI scanner (Agilent/Varian DirectDrive Console). Eight mice were used for measuring the temperature rise associated with the FUS sonication: n=4 for the mechanical group (a total of 20 repeated temperature measurements for each FUS intensity level) and n=4 for the mechanothermal group (a total of 10 repeated temperature measurements for each FUS intensity level). MR thermometry images were acquired in synchronization with FUS stimulation using a continuously applied gradient-echo imaging sequence with a flip angle of 20 degrees, repetition time of 10 ms, echo time of 4 ms, slice thickness of 1.5 mm, and matrix size of 128×128 for 60×60 mm2 field of view. Acquired images were processed using ThermoGuide software (Image Guided Therapy, Pessac, France) to obtain the temperature maps. A circle of 1.7 mm in diameter, which matched the lateral FWHM dimension of the FUS, was drawn on the MR thermometry image. The mean temperature within the circle was calculated at each time point for each FUS sonication.
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5

T2* Mapping of Tumor Vasculature

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MRI was performed using a 4.7 T 50 cm horizontal bore MR Spectrometer equipped with a 30 cm ID gauss/cm and a 12 cm ID gauss/cm gradient tube and interfaced to a Varian DirectDrive console. T2*-weighted MR images were acquired using a multi-gradient echo multi-slice sequence with a 35 mm coil under the following parameters: TR = 1000 ms, TI = 60 ms, NA = 3, FA = 90 degrees, number of echoes = 8, slice thickness = 1 mm, imaging matrix = 128 × 128 and FOV = 30 × 30 mm. TE values were chosen between 3.3 and 26.4 ms (with an interval of 3.3 ms). Post-contrast images of the tumor-bearing mice were acquired 24 hours after injection using the same imaging parameters as the pre-contrast images. Throughout the experiment, the respiratory rate of the mice was monitored and their body temperature was maintained at 37°C. Color coded R2 maps were generated from the MR images acquired with the above sequence using a custom written MATLAB program for pixel-wise curve fitting of the T2 relaxation times. The first four echo times from 3.3 ms to 13.2 ms were chosen to construct the maps. Mean R2 values were computed by averaging pixels within the tumor ROI for each mouse (three tumor slices per mouse). Squared correlation coefficient was also calculated to examine the quality of curve fitting for each pixel across the tumor regions. Results at each time point are presented as mean ± SD.
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6

Imaging GBM Tumors via GSM Contrast

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Both before and 48 hours after intravenous administration of GSMs to mice with sufficiently large GBM brain tumors, CT and MRI imaging were performed to visualize the tumor and assess whether enough GSMs had accumulated to serve as an effective contrast agent for both imaging modalities. The Small Animal Radiation Research Platform was used for CT imaging. Mice anesthetized with a mixture of ketamine and xylazine (140 and 10 mg/kg, respectively) were imaged using a 50 kVp potential (0.5 mA).
MRI was performed using the Small Animal Imaging Facility at the University of Pennsylvania, on a 9.4 T 31 cm horizontal bore MR Spectrometer equipped with a 21 cm ID gauss/cm and a 12 cm ID gauss/cm gradient tube and interfaced to a Varian DirectDrive console. T2 weighted imaging was conducted using a 25 mm coil, with TE and TR times of 2 s and 80 ms, respectively. Throughout the experiment, anesthesia was maintained on 100% oxygen and 1–2% isoflurane while monitoring respiratory rate and maintaining 37 °C body temperature.
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7

Hyperpolarized MRS Imaging of Murine Heart

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The hyperpolarized MRS protocol was performed as previously described (26 (link)). In brief, mice were anaesthetized using 4% isoflurane for induction and then maintained at 1.5% isoflurane for the duration of the experiment. An intravenous line was established in the tail vein for the administration of hyperpolarized solutions. Mice were weighed and then placed supine into a custom-made cradle and ECG leads were inserted in the forepaws. The cradle was then inserted into the horizontal bore of a 7T MRI scanner connected to a direct drive console (Varian, Inc. Palo Alto, California, US). After preliminary axial scans to localize the heart, 0.15 ml of [1-13C]pyruvate, hyperpolarized as described24, was injected over 10 s and cardiac gated 13C MR spectra acquired every second for 60 s (10 mm radius 13C RF coil). MRS spectra were analysed using the AMARES algorithm in jMRUI software25, employing the maximum metabolite signal normalized to the maximum pyruvate signal to correct for variation in sample polarization and injection rate.
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8

In vivo 9.4T 1H-MRS of Hippocampus and Cerebellum

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In vivo 9.4T 1H-MRS was performed on a Horizontal Actively Shielded 9.4 T system (Magnex Scientific, Oxford, UK) interfaced to a Varian Direct Drive console (Palo Alto, CA, USA) as previously described in hippocampus and cerebellum of mWT and non-injected mKI, as well as injected mKI plus or minus Cr supplementation.33 (link)
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9

In Vivo Brain Imaging of Mice

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Magnetic resonance images were collected using an Oxford Instruments 4.7-T magnet (40 cm, clear bore) equipped with 21-cm inner diameter, actively shielded Agilent/Magnex (Yarnton) gradient coils (maximum gradient 28 G/cm; rise time ~650 μs) driven by model A-240 amplifiers (Oy International Electric Company) The magnet/gradients were interfaced with an Agilent/Varian Direct Drive console, and data were collected using a 1.5-cm OD surface coil (receive) and a 5-cm ID Helmholtz coil (transmit) actively decoupled coil pair as described [108 ]. Before the imaging experiments, mice were anesthetized with isoflurane/O2 [2–3% (v/v)], and maintained on isoflurane/O2 [1% (v/v)] throughout the experiments. Animal body temperature was maintained at 37°C using a pad heated with warm circulating water. Mice were injected i.p. with 500 μl MultiHance contrast agent (Bracco Imaging), diluted 1:10 in sterile saline, 15 minutes prior to being placed in the magnet. T1-weighted, spin-echo multi-slice transaxial images were collected with TR = 0.65 s, TE = 0.02 s, FOV = 1.5 × 1.5 cm2, slice thickness = 0.5 mm.
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10

9.4T MRI Comparative Protocol

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All experiments were conducted on a 9.4 T Agilent scanner equipped with a DirectDrive console and a 1000 mT/m actively shielded gradient set (internal diameter = 60 mm) (Agilent Technologies, USA). For comparative tests (pulse sequences, radiofrequency (RF) coils), the same acquisition parameters and total acquisition times were used.
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