2004 CCHS

Scanner: BMC vs Trio

CCHSS104 - different scanner
CCHSS105 - different scanner

DTI

CCHSS106 - incomplete data (only one 12-direction series)
CCHSS107 - different protocol
CCHSS108 - different slice thickness
CCHSS109 - different protocol
CCHSC110 - different slice thickness
CCHSC137 - suspected OSA
CCHSC145 - cyst in cerebellar region
CCHSC148 - incomplete data (only one 6-direction series)
CCHSC150 - different protocol
CCHSC151 - different protocol
CCHSC160 - different protocol, incomplete data (half of the brain missing)
CCHSC161 - different protocol, incomplete data (only one 12-direction series)

Subjects 7, 8, 9, 50, 51, 60 and 61 did not have GRAPPA enabled during DTI scans and the TR was different (Rajesh was away, and Jeff had to reload the protocol, but missed the GRAPPA setting). The distributions of FA/MD values were all slightly but noticeably different to the other subjects. Subject 60 only has half the brain. These subjects were scanned in sequence in June 2004, with the lower numbers (7, 8, 9) being repeat studies.

Subjects 8 and 10 had different slice thickness - it was only 0.1 mm different (2.0 mm versus the normal 1.9 mm; we had just moved from Brain Mapping), but the histogram of MD/FA distribution was noticeably different.

fMRI

The head-coil was not used for this sequence, which means the data are extremely noisy.

S08 has no physiology data.

Timing

We skipped 5 scans at the start, to allow for signal saturation. This was determined from global BOLD.

paced stimulus, paced breathing, passive foot (note challenge INCLUDES 1st scan)

(in scans)
0 - start
40 - on
60 - off
80 - on
100 - off
120 - on
140 off
180 end

cold pressor

(in scans)
0 - start
60- on
120 - off
180 - end

fMRI - cold pressor

Global BOLD global BOLD plots (cold pressor, 32 CON from CCHS2004).fig
CCHSC116 - cold pressor large global change (decrease sustained around 5%)
CCHSC129 - cold pressor large global change (increase sustained ~4%)

Motion motion plot (cold pressor, 32 CON from CCHS2004).fig
CCHSC134 - cold pressor motion > 4 mm (-ve Y, +ve Z)
CCHSC124 - cold pressor motion > 4 mm (+ve Z, sustained 8 mm)

CCHSC116 - cold pressor motion > 4 mm (+ve Z, sustained 8 mm)
CCHSC139 - cold pressor motion > 4 mm (+ve Z, sustained 8 mm)
CCHSC141 - cold pressor motion > 4 mm (+ve Z, sustained 6 mm)
CCHSC150 - cold pressor motion > 4 mm (+ve Z, sustained 6 mm)

fMRI - paced breathing

Global BOLD CCHS global BOLD plots (cold pressor, 32 CON from CCHS2004).fig Control group means
CCHSC139 - large global changes (intermittent, down to -6%)

Motion Control CCHS mean, both groups
CCHSC110 - motion > 4 mm (+ve Z, stepped with challenge)
CCHSC139 - motion > 4 mm (+ve Z, with challenge)
CCHSS108 - motion > 4 mm (+ve Z, single time point)

fMRI - passive foot motion

Also excluded: C48, C50, C60, C61

Global BOLD left CCHS left Control left group means right CCHS right Control right group means
CCHSC102 - passive foot motion large global change

Motion left CCHS left Control left group means right CCHS right Control right group means
CCHSS117 - left foot - motion > 4 mm (+ Z, single timepoint, other motion)
CCHSS133 - right foot - motion > 4 mm (+ Z, single timepoint, other motion)
CCHSC150 - right foot - motion > 6 mm

I tried both LMGS and LMRPGS preprocessing, and the PLRPGS kills much of the signal, and removes the signal from the sensory-motor cortex, so based on that is no good.

T1

C24 did not normalize properly; I manually reoriented with SPM "Display."