MGH Adult Diffusion Data Scanning Protocols
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1 MGH Adult Diffusion Data Scanning Protocols Structural scans SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\AAHScout_64 TA:0:14 PAT:3 Voxel size: mm Rel. SNR:1.00 :fl Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slab groups 1 Slabs 1 Dist. factor 20 % L0.0 A10.0 H0. Orientation Sagittal Slice oversampling 0.0 % FoV read 26 FoV phase % Slice thickness 1.6 mm TR 3.15 ms TE 1.37 ms Averages 1 Concatenations 1 Filter Head Contrast Flip angle 8 deg Short term Measurements 1 Reconstruction Magnitude Resolution Base resolution 160 Phase resolution 100 % Phase partial Fourier 6/8 PAT mode GRAPPA Accel. factor PE 3
2 Ref. lines PE 24 Reference scan mode Integrated Image Filter Accel. factor 3D 1 Unfiltered images Normalize B1 filter Raw filter Elliptical filter Slice resolution 69 % Slice partial Fourier 6/8 Geometry Nr. of slab groups 1 Slabs 1 Dist. factor 20 % L0.0 A10.0 H0. Slice oversampling 0.0 % Slices per slab 128 Sequential Series Ascending Nr. of sat. regions 0 mode P System Body TOP BOT mode ing mode REF H MSMA S - C - T Sagittal Coronal Transversal Save uncombined Coil Combine Mode Adaptive Combine Auto Coil Select Default Shim mode Tune up Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V Isocenter Rotation 0.00 deg mm
3 35 Frequency 1H MHz Correction factor 1 SRFExcit 1H V Gain Low Img. Scale. Cor Physio Inline Distortion correction Sequence Introduction Dimension 3D Short term Sequential Asymmetric echo Weak Contrasts 1 Bandwidth 54/Px RF pulse type Fast Gradient mode Normal Excitation Non-sel. RF spoiling TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration Mode BOLD Time to center 6.2 s Subtract Save images Autoscaling Scaling factor 1 set 0 Subtrahend 1 Subtraction indices StdDev Std-Dev-Sag Std-Dev-Cor Std-Dev-Tra Std-Dev-Time MIP-Sag MIP-Cor MIP-Tra MIP-Time Radial MIP Save original images Contrasts 1 Save original images Number of radial views 1 Axis of radial views L-R MPR Sag
4 MPR Cor MPR Tra SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\MEMPRAGE_pat2 TA:6:02 PAT:2 Voxel size: Rel. SNR:1.00 :tfl_me Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slab groups 1 Slabs 1 Dist. factor 50 % R0.8 P18.4 F16.7 mm Orientation Sagittal Head > Basis Slice oversampling 0.0 % FoV read 256 mm FoV phase % Slice thickness 1.0 TR TE ms Averages 1 Concatenations 1 Filter Contrast Non-sel. IR TI 110 Flip angle 7.0 deg Water suppr. Long term Measurements 1 Reconstruction Magnitude Multiple series Each measurement Resolution Base resolution 256
5 Phase resolution 100 % Phase partial Fourier Interpolation PAT mode GRAPPA Accel. factor PE 2 Ref. lines PE 32 Reference scan mode Integrated Image Filter Accel. factor 3D 1 Unfiltered images Normalize B1 filter Raw filter Elliptical filter Slice resolution 100 % Slice partial Fourier Geometry Nr. of slab groups 1 Slabs 1 Dist. factor 50 % R0.8 P18.4 F16.7 mm Slice oversampling 0.0 % Slices per slab 176 Single shot Series Nr. of sat. regions 0 mode Water suppr. P System Body TOP BOT mode ing mode REF H MSMA S - C - T Sagittal Coronal Transversal Save uncombined Coil Combine Mode Adaptive Combine Head > Basis Auto Coil Select Default Shim mode Standard Adjust with body coil Confirm freq. adjustment
6 Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V R0.8 P18.4 F16.7 mm Rotation 0.00 deg 256 mm 256 mm 176 mm Frequency 1H MHz Correction factor 1 SLoopIRns1 1H V Gain Low Img. Scale. Cor Physio 1st Signal/Mode Non-sel. IR TI 110 Dark blood Resp. control Inline Distortion correction Sequence Introduction Dimension 3D Elliptical scanning Long term Single shot Reordering Linear Asymmetric echo Allowed Contrasts 4 Bandwidth Hz/Px Flow comp. 1 No Echo spacing 9.4 ms Turbo factor 176 RF pulse type Fast Gradient mode Fast Excitation Non-sel. RF spoiling Readout polarity Positive Readout trajectory Bipolar Add. scale factor 2.0 Gradient spoiling Integral Gradient moment factor 3.0 Siemens reconstruction Save raw k-space data Averaging RMS TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration Mode
7 BOLD Subtract Save images Autoscaling Scaling factor 1 set 0 Subtrahend 1 Subtraction indices StdDev Std-Dev-Sag Std-Dev-Cor Std-Dev-Tra Std-Dev-Time MIP-Sag MIP-Cor MIP-Tra MIP-Time Radial MIP Save original images Contrasts 4 Save original images Number of radial views 1 Axis of radial views L-R MPR Sag MPR Cor MPR Tra SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\t2_spc_WashU_Connectome_0p7iso TA:6:48 PAT:2 Voxel size: mm Rel. SNR:1.00 :spc Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slab groups 1 Slabs 1 R0.8 P18.4 F16.7 mm Orientation Sagittal Head > Basis
8 Phase oversampling 10 % Slice oversampling 0.0 % FoV read 224 mm FoV phase % Slice thickness 0.7 TR 320 TE 561. Concatenations 1 Filter Raw filter, Prescan Normalize Contrast MTC Water suppr. Restore magn. Measurements 1 Reconstruction Magnitude Multiple series Each measurement Resolution Base resolution 320 Phase resolution 100 % Phase partial Fourier Allowed Interpolation PAT mode GRAPPA Accel. factor PE 2 Ref. lines PE 32 Reference scan mode Integrated Image Filter Accel. factor 3D 1 Unfiltered images Normalize B1 filter Raw filter Intensity Weak Slope 25 Elliptical filter Slice resolution 80 % Slice partial Fourier Geometry Nr. of slab groups 1 Slabs 1 R0.8 P18.4 F16.7 mm Phase oversampling 10 % Slice oversampling 0.0 % Slices per slab 256 Series Nr. of sat. regions 0 mode
9 Water suppr. P Restore magn. System Body TOP BOT mode ing mode FIX H MSMA S - C - T Sagittal Coronal Transversal Save uncombined Coil Combine Mode Adaptive Combine Head > Basis Auto Coil Select Shim mode Standard Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V R0.8 P18.4 F16.7 mm Rotation 0.00 deg 224 mm 224 mm 18 Frequency 1H MHz Correction factor 1 SRFExcit 1H V! Gain High Img. Scale. Cor Physio 1st Signal/Mode Trigger delay Dark blood Resp. control Inline Distortion correction Sequence Introduction Dimension 3D Elliptical scanning Reordering Linear Bandwidth 744 Hz/Px Flow comp. No
10 BOLD Allowed delay 30 s Echo spacing 3.55 ms Adiabatic-mode Turbo factor 314 Echo train duration 1111 RF pulse type Normal Gradient mode Fast Excitation Non-sel. Flip angle mode T2 var TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration Organ under exam. Subtract Save images Autoscaling Scaling factor 1 set 0 Subtrahend 1 Subtraction indices StdDev Std-Dev-Sag Std-Dev-Cor Std-Dev-Tra Std-Dev-Time MIP-Sag MIP-Cor MIP-Tra MIP-Time Radial MIP Save original images Save original images Number of radial views 1 Axis of radial views L-R MPR Sag MPR Cor MPR Tra
11 Diffusion scans SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\ep2d_diff_qb64_b1k TA:11:44 PAT:3 Voxel size: mm Rel. SNR:1.00 :epse Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slice groups 1 Slices 96 Dist. factor 0 % Orientation T > C-25.0 Head > Brain FoV read FoV phase % Slice thickness 1.5 mm TR 880 TE 57. Averages 1 Concatenations 1 Filter Contrast MTC Fat sat. Fat sat. mode Strong Long term Delay in TR Reconstruction Magnitude Multiple series Resolution Base resolution 140 Phase resolution 100 % Phase partial Fourier 6/8 Interpolation PAT mode GRAPPA
12 Accel. factor PE 3 Ref. lines PE 84 Reference scan mode Separate Normalize Raw filter Elliptical filter Dynamic Field Corr. Geometry Nr. of slice groups 1 Slices 96 Dist. factor 0 % Series Nr. of sat. regions 0 mode Fat sat. Fat sat. mode Strong P System Body TOP BOT mode ing mode FIX H MSMA S - C - T Sagittal Coronal Transversal Coil Combine Mode Adaptive Combine Head > Brain Auto Coil Select Default Shim mode Standard Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V Rotation 0.00 deg 144 mm Frequency 1H MHz Correction factor 1
13 ACS SincRFPulse 1H V Gain High Img. Scale. Cor Physio 1st Signal/Mode Resp. control Inline Distortion correction Sequence Introduction Long term Bandwidth 1984 Hz/Px Optimization Free echo spacing Echo spacing 0.63 ms EPI factor 140 RF pulse type Low SAR Gradient mode Fast Directions HCP_xc_64_cnst Preparation 1 TRs Init. Low-B Reps 1 Dynamic B0 Correction Complex Coil Combine Grad Min Rise 1.m/T Max Diff Grad 243 mt/m RO/PE Grads Standard Auto-scale images RO ramp sampling Force segmented ACS TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration BOLD Delay in TR Diffusion mode Free Diff. weightings 2 b-value 1 0 s/mm² Diff. weighted images Trace weighted images ADC maps FA maps Mosaic Tensor b-value >= 0 s/mm² Exponential ADC Maps Invert Gray Scale Calculated Image
14 SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\ep2d_diff_qb64_b3k TA:11:44 PAT:3 Voxel size: mm Rel. SNR:1.00 :epse Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slice groups 1 Slices 96 Dist. factor 0 % Orientation T > C-25.0 Head > Brain FoV read FoV phase % Slice thickness 1.5 mm TR 880 TE 57. Averages 1 Concatenations 1 Filter Contrast MTC Fat sat. Fat sat. mode Strong Long term Delay in TR Reconstruction Magnitude Multiple series Resolution Base resolution 140 Phase resolution 100 % Phase partial Fourier 6/8 Interpolation PAT mode GRAPPA Accel. factor PE 3 Ref. lines PE 84
15 Reference scan mode Separate Normalize Raw filter Elliptical filter Dynamic Field Corr. Geometry Nr. of slice groups 1 Slices 96 Dist. factor 0 % Series Nr. of sat. regions 0 mode Fat sat. Fat sat. mode Strong P System Body TOP BOT mode ing mode FIX H MSMA S - C - T Sagittal Coronal Transversal Coil Combine Mode Adaptive Combine Head > Brain Auto Coil Select Default Shim mode Standard Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V Rotation 0.00 deg 144 mm Frequency 1H MHz Correction factor 1 ACS SincRFPulse 1H V Gain High
16 Img. Scale. Cor Physio 1st Signal/Mode Resp. control Inline Distortion correction Sequence Introduction Long term Bandwidth 1984 Hz/Px Optimization Free echo spacing Echo spacing 0.63 ms EPI factor 140 RF pulse type Low SAR Gradient mode Fast Directions HCP_xc_64_cnst Preparation 1 TRs Init. Low-B Reps 1 Dynamic B0 Correction Complex Coil Combine Grad Min Rise 1.m/T Max Diff Grad 243 mt/m RO/PE Grads Standard Auto-scale images RO ramp sampling Force segmented ACS TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration BOLD Delay in TR Diffusion mode Free Diff. weightings 2 b-value 1 0 s/mm² Diff. weighted images Trace weighted images ADC maps FA maps Mosaic Tensor b-value >= 0 s/mm² Exponential ADC Maps Invert Gray Scale Calculated Image
17 SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\ep2d_diff_qb128_b5k TA:21:51 PAT:3 Voxel size: mm Rel. SNR:1.00 :epse Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slice groups 1 Slices 96 Dist. factor 0 % Orientation T > C-25.0 Head > Brain FoV read FoV phase % Slice thickness 1.5 mm TR 880 TE 57. Averages 1 Concatenations 1 Filter Contrast MTC Fat sat. Fat sat. mode Strong Long term Delay in TR Reconstruction Magnitude Multiple series Resolution Base resolution 140 Phase resolution 100 % Phase partial Fourier 6/8 Interpolation PAT mode GRAPPA Accel. factor PE 3 Ref. lines PE 84
18 Reference scan mode Separate Normalize Raw filter Elliptical filter Dynamic Field Corr. Geometry Nr. of slice groups 1 Slices 96 Dist. factor 0 % Series Nr. of sat. regions 0 mode Fat sat. Fat sat. mode Strong P System Body TOP BOT mode ing mode FIX H MSMA S - C - T Sagittal Coronal Transversal Coil Combine Mode Adaptive Combine Head > Brain Auto Coil Select Default Shim mode Standard Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V Rotation 0.00 deg 144 mm Frequency 1H MHz Correction factor 1 ACS SincRFPulse 1H V Gain High
19 Img. Scale. Cor Physio 1st Signal/Mode Resp. control Inline Distortion correction Sequence Introduction Long term Bandwidth 1984 Hz/Px Optimization Free echo spacing Echo spacing 0.63 ms EPI factor 140 RF pulse type Low SAR Gradient mode Fast Directions HCP_xc_128_cnst Preparation 1 TRs Init. Low-B Reps 1 Dynamic B0 Correction Complex Coil Combine Grad Min Rise 1.m/T Max Diff Grad 243 mt/m RO/PE Grads Standard Auto-scale images RO ramp sampling Force segmented ACS TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration BOLD Delay in TR Diffusion mode Free Diff. weightings 2 b-value 1 0 s/mm² Diff. weighted images Trace weighted images ADC maps FA maps Mosaic Tensor b-value >= 0 s/mm² Exponential ADC Maps Invert Gray Scale Calculated Image
20 SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\ep2d_diff_qb128_b10k_set1 TA:21:51 PAT:3 Voxel size: mm Rel. SNR:1.00 :epse Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slice groups 1 Slices 96 Dist. factor 0 % Orientation T > C-25.0 Head > Brain FoV read FoV phase % Slice thickness 1.5 mm TR 880 TE 57. Averages 1 Concatenations 1 Filter Contrast MTC Fat sat. Fat sat. mode Strong Long term Delay in TR Reconstruction Magnitude Multiple series Resolution Base resolution 140 Phase resolution 100 % Phase partial Fourier 6/8 Interpolation PAT mode GRAPPA Accel. factor PE 3 Ref. lines PE 84
21 Reference scan mode Separate Normalize Raw filter Elliptical filter Dynamic Field Corr. Geometry Nr. of slice groups 1 Slices 96 Dist. factor 0 % Series Nr. of sat. regions 0 mode Fat sat. Fat sat. mode Strong P System Body TOP BOT mode ing mode FIX H MSMA S - C - T Sagittal Coronal Transversal Coil Combine Mode Adaptive Combine Head > Brain Auto Coil Select Default Shim mode Standard Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V Rotation 0.00 deg 144 mm Frequency 1H MHz Correction factor 1 ACS SincRFPulse 1H V Gain High
22 Img. Scale. Cor Physio 1st Signal/Mode Resp. control Inline Distortion correction Sequence Introduction Long term Bandwidth 1984 Hz/Px Optimization Free echo spacing Echo spacing 0.63 ms EPI factor 140 RF pulse type Low SAR Gradient mode Fast Directions HCP_xc_128_cnst Preparation 1 TRs Init. Low-B Reps 1 Dynamic B0 Correction Complex Coil Combine Grad Min Rise 1.m/T Max Diff Grad 243 mt/m RO/PE Grads Standard Auto-scale images RO ramp sampling Force segmented ACS TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration BOLD Delay in TR Diffusion mode Free Diff. weightings 2 b-value 1 0 s/mm² Diff. weighted images Trace weighted images ADC maps FA maps Mosaic Tensor b-value >= 0 s/mm² Exponential ADC Maps Invert Gray Scale Calculated Image
23 SIEMENS MAGNETOM ConnectomA syngo MR D11 \\USER\INVESTIGATORS\Default\ep2d_diff_qb128_b10k_set2 TA:21:51 PAT:3 Voxel size: mm Rel. SNR:1.00 :epse Properties Prio Recon Before measurement After measurement Load to viewer Inline movie Auto store images Load to stamp segments Load images to graphic segments Auto open inline display Wait for user to start Start measurements single Routine Nr. of slice groups 1 Slices 96 Dist. factor 0 % Orientation T > C-25.0 Head > Brain FoV read FoV phase % Slice thickness 1.5 mm TR 880 TE 57. Averages 1 Concatenations 1 Filter Contrast MTC Fat sat. Fat sat. mode Strong Long term Delay in TR Reconstruction Magnitude Multiple series Resolution Base resolution 140 Phase resolution 100 % Phase partial Fourier 6/8 Interpolation PAT mode GRAPPA Accel. factor PE 3 Ref. lines PE 84 Reference scan mode Separate
24 Normalize Raw filter Elliptical filter Dynamic Field Corr. Geometry Nr. of slice groups 1 Slices 96 Dist. factor 0 % Series Nr. of sat. regions 0 mode Fat sat. Fat sat. mode Strong P System Body TOP BOT mode ing mode FIX H MSMA S - C - T Sagittal Coronal Transversal Coil Combine Mode Adaptive Combine Head > Brain Auto Coil Select Default Shim mode Standard Adjust with body coil Confirm freq. adjustment Assume Dominant Fat Assume Silicone Adjustment Tolerance Auto? Ref. amplitude 1H V Rotation 0.00 deg 144 mm Frequency 1H MHz Correction factor 1 ACS SincRFPulse 1H V Gain High
25 Img. Scale. Cor Physio 1st Signal/Mode Resp. control Inline Distortion correction Sequence Introduction Long term Bandwidth 1984 Hz/Px Optimization Free echo spacing Echo spacing 0.63 ms EPI factor 140 RF pulse type Low SAR Gradient mode Fast Directions HCP_xc_alt_128_cnst Preparation 1 TRs Init. Low-B Reps 1 Dynamic B0 Correction Complex Coil Combine Grad Min Rise 1.m/T Max Diff Grad 243 mt/m RO/PE Grads Standard Auto-scale images RO ramp sampling Force segmented ACS TX/RX delta frequency TX Nucleus TX delta frequency Acquisition duration BOLD Delay in TR Diffusion mode Free Diff. weightings 2 b-value 1 0 s/mm² Diff. weighted images Trace weighted images ADC maps FA maps Mosaic Tensor b-value >= 0 s/mm² Exponential ADC Maps Invert Gray Scale Calculated Image
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