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Neuroimaging Lab Information
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Hardware/Software

Software:

The Layton Center Imaging Lab primarily uses REGION, a Macintosh-based application designed by Dr. William Coshow and Jeff Kaye for the Center.

NIH Image is also used in the Center to visualize brain images and for some volumetric procedures, such as hippocampal analysis and the measurement of the central sulcus for full coronal analysis.

Hardware:

The volumetric analyses are performed on Macintosh computers. Currently we are using dual processor G4's with flat panel monitors.

 
Scanner/Scan Protocol

For the fourteen years the Center has been studying MRI scans, all of the OHSU scans have been acquired on GE 1.5Tesla magnets. Currently, OHSU uses an LX and an Horizon scanner. OHSU has recently added two 3Tesla Philips scanners; testing is underway to establish the standard protocols on these machines. A 3T Siemens scanner is also available through the OHSU AIRC.

The Layton Center has a standard protocol for use in most of our studies. Consistent use of the same protocol across studies allows us to pool data for greatly expanded analyses. Other studies with an imaging component are required to use protocols designed specifically for these multi-site studies.

For details of the GE scanner protocol for each study, hover the mouse pointer over the study of interest. For further information about each study, click on that study's name in the list.

 
1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1.T1 Sagittals; 5mm thick, 0.0 space.  2. Dual Echo Coronals; Proton Density (TE=32); T2-weighted (TE=80); 4mm thick, 0.0 space.  3. Coronal 3D SPGR: Extended dynamic range; skin-to-skin; TR=minimum; TE=minimum  full; FOV 24 x 18, matrix 256 x 192; 2mm thick, 0.0 space; NEX 2; flip angle=25 1. Sagittal 2D spin echo: TE = minimum, TR = up to 700 msec, FOV = 24 cm, 5mm slices with no gap(interleaved), 256 x 192 matrix, one repetition, frequency encoding direction S/I. Cover side to side - i.e., skin-to-skin.   2. Coronal 3D volumetric spoiled gradient echo: flip angle 25°or45°, TE = minimum FULL, TR = minimum,  FOV = 22 cm x 16.5 cm, 124 slices at 1.6 mm/slice, matrix 256 x 192, 3/4 phase FOV (rectangular FOV), ± 10 kHz BW (if you have the Echo Speed platform, - +16 kHz BW otherwise), time 7-8 min.   3. Axial spin density, fast spin echo: 20 cm FOV, 3 mm interleaved (no gap), TR = 2000 msec, TE =minimum, echo train length =4, ±16 kHz BW, matrix 256 x192, I sat., time 3:20.  4. Axial T2 fast spin echo, 20 cm FOV, 3 mm interleaved (no gap), TR=3000 msec, TE =102 msec, echo train length = 8, ±16 kHz BW, 256 x 192matrix, I sat, time 2:40. 1.  T1-SAGITTALS SLICE THICKESS/SPACING: 5.0/1.5 FOV: 26 x 26 MATRIX: 256 x 192  2.  3D T1 CORONALS SLICE THICKESS/SPACING: 1.8/0.0 FOV: 25 x 18 MATRIX: 256 x 192  3.  AXIAL T2 WEIGHTED FLAIR SLICE THICKNESS/SPC: 5.0/0.0 FOV: 25 x 25 MATRIX: 256 x 256
 
Volumetric Analysis
The Layton Center Imaging Laboratory performs volumetric analysis for many of the Center’s studies. Some studies obtain MRIs only to rule out exclusionary conditions (such as stroke), while others look to the MRI quantification as a primary outcome measure. The volumetric procedure used for each study is tailored to the investigator’s final data requirements. The list below, though not exhaustive, links to more information about many of the procedures we use to measure brain volumes of interest.
 

Coronal analysis – lobar volumes

Hippocampal volume

Ventricular Volume

Intracranial volume

Entorhinal cortex

Corpus Callosum

Interuncal Distance (for details, see our publication Howieson J, Kaye JA, Holm L, Howieson D. Interuncal distance: marker of aging and Alzheimer disease. American Journal of Neuroradiology 14:647-650, 1993.)

 
White / Grey Matter quantification -- REGION is currently under development to add the capability to quantify grey and white matter volumes using a semi-automated algorithm.