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BrainStat - the details

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1 BrainStat - the details
Jonathan Taylor, Stanford Keith Worsley, McGill

2 What is BrainStat? Based on FMRISTAT (Matlab)
Written in Python (open source) Part of BrainPy (Poster 763 T-AM) Concentrates on statistics Analyses both magnitudes and delays (latencies) P-values for peaks and clusters uses latest random field theory

3 Details Input data is motion corrected and preferably slice timing corrected Output is complete hierarchical mixed effects ReML analysis (local AR(p) errors at first stage) Spatial regularization of (co)variance ratios chosen to target 100 df (Poster 610 M-PM) P-values for peaks and clusters are best of Bonferroni random field theory discrete local maxima (Poster 539 T-AM)

4 Methods Slice timing and motion correction by FSL
AR(1) errors on each run For each subject, 2 runs combined using fixed effects analysis Spatial registration to 152 MNI by FSL Subjects combined using mixed effects analysis Repeated for all contrasts of both magnitudes and delays

5 Results (only part of slice z=-8mm is shown)
Magnitude (%BOLD) Delay shift (secs) Events Blocks Average Diff – same sentence Diff – same speaker Interaction

6 Conclusions Strong overall %BOLD increase of 3±0.5%
Substantial subject variability (sd ratio ~8) Evidence for greater %BOLD response for different sentences (0.5±0.1%) Evidence for greater latency for different sentences (0.16±0.04 secs) Event design is better for delays Block design is better for overall magnitude

7 Efficiency of designs (lower is better) for a single run, assuming additivity of responses For average magnitude, block is much better. For all other contrasts in the delays, event is much better.

8 -2 2 4 6 0.5 1 1.5 -5 5 200 3 7 100 8 9 10 11 12 13 14 15 Subject id, event experiment Mixed effects Ef Sd T df Magnitude (%BOLD), stimulus average Contour is: average anatomy > 2000 Random /fixed effects sd smoothed 10.836mm FWHM (mm) P=0.05 threshold for peaks is +/ 20 y (mm) x (mm) 120 140 160 180 50 150 250

9 -2 -1 1 2 0.5 1.5 -5 5 280 281 3 279 4 275 6 269 7 134 8 9 283 10 276 11 282 12 256 13 267 14 273 15 286 100 Subject id, event experiment Mixed effects Ef Sd T df Magnitude (%BOLD), diff - same sentence Contour is: average anatomy > 2000 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 20 y (mm) x (mm) -60 -40 -20 -50 50

10 -2 -1 1 2 0.5 1.5 -5 5 273 271 3 276 4 281 6 274 7 136 8 265 9 293 10 264 11 268 12 13 14 296 15 270 100 Subject id, event experiment Mixed effects Ef Sd T df Magnitude (%BOLD), diff - same speaker Contour is: average anatomy > 2000 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 20 y (mm) x (mm) -60 -40 -20 -50 50

11 -2 -1 1 2 0.5 1.5 -5 5 278 3 279 4 280 6 264 7 126 8 277 9 287 10 11 272 12 260 13 14 15 100 Subject id, event experiment Mixed effects Ef Sd T df Magnitude (%BOLD), interaction Contour is: average anatomy > 2000 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 20 y (mm) x (mm) -60 -40 -20 -50 50

12 -2 -1 1 2 0.5 1.5 -4 4 200 3 6 7 100 8 9 10 11 12 13 14 15 Subject id, event experiment Mixed effects Ef Sd T df Delay shift (secs), stimulus average Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 5 20 y (mm) x (mm) -60 -40 -20 -50 50

13 -2 -1 1 2 0.5 1.5 -4 4 280 281 3 279 275 6 269 7 134 8 9 283 10 276 11 282 12 256 13 267 14 273 15 286 100 Subject id, event experiment Mixed effects Ef Sd T df Delay shift (secs), diff - same sentence Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed 16.754mm FWHM (mm) P=0.05 threshold for peaks is +/ 5 20 y (mm) x (mm) -60 -40 -20 -50 50

14 -2 -1 1 2 0.5 1.5 -4 4 273 271 3 276 281 6 274 7 136 8 265 9 293 10 264 11 268 12 13 14 296 15 270 100 Subject id, event experiment Mixed effects Ef Sd T df Delay shift (secs), diff - same speaker Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) Peaks not significant at P=0.05 5 20 y (mm) x (mm) -60 -40 -20 -50 50

15 -2 -1 1 2 0.5 1.5 -4 4 278 3 279 280 6 264 7 126 8 277 9 287 10 11 272 12 260 13 14 15 100 Subject id, event experiment Mixed effects Ef Sd T df Delay shift (secs), interaction Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 5 20 y (mm) x (mm) -60 -40 -20 -50 50

16 2 4 0.5 1 -5 5 10 15 20 209 3 214 210 6 211 7 8 9 207 212 11 12 13 14 216 99 Subject id, block experiment Mixed effects Ef Sd T df Magnitude (%BOLD), stimulus average Contour is: average anatomy > 2000 Random /fixed effects sd smoothed 6.7765mm FWHM (mm) P=0.05 threshold for peaks is +/ y (mm) x (mm) -60 -40 -20 -50 50

17 -2 -1 1 2 0.5 -5 5 205 206 3 203 4 6 7 204 8 9 201 10 11 200 12 13 14 15 100 Subject id, block experiment Mixed effects Ef Sd T df Magnitude (%BOLD), diff - same sentence Contour is: average anatomy > 2000 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 1.5 20 y (mm) x (mm) -60 -40 -20 -50 50

18 -2 -1 1 2 0.5 -5 5 201 202 3 200 4 206 6 7 8 9 10 204 11 12 13 14 205 15 100 Subject id, block experiment Mixed effects Ef Sd T df Magnitude (%BOLD), diff - same speaker Contour is: average anatomy > 2000 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 1.5 20 y (mm) x (mm) -60 -40 -20 -50 50

19 -2 -1 1 2 0.5 -5 5 204 200 3 207 4 6 7 205 8 202 9 203 10 11 12 206 13 201 14 15 100 Subject id, block experiment Mixed effects Ef Sd T df Magnitude (%BOLD), interaction Contour is: average anatomy > 2000 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 1.5 20 y (mm) x (mm) -60 -40 -20 -50 50

20 -2 -1 1 2 0.5 1.5 -4 4 209 3 214 210 6 211 7 8 9 207 10 212 11 12 13 14 15 216 100 Subject id, block experiment Mixed effects Ef Sd T df Delay shift (secs), stimulus average Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 5 20 y (mm) x (mm) -60 -40 -20 -50 50

21 -2 -1 1 2 0.5 1.5 -4 4 205 206 3 203 6 7 204 8 9 201 10 11 200 12 13 14 15 100 Subject id, block experiment Mixed effects Ef Sd T df Delay shift (secs), diff - same sentence Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) P=0.05 threshold for peaks is +/ 5 20 y (mm) x (mm) -60 -40 -20 -50 50

22 -2 -1 1 2 0.5 1.5 -4 4 201 202 3 200 206 6 7 8 9 10 204 11 12 13 14 205 15 100 Subject id, block experiment Mixed effects Ef Sd T df Delay shift (secs), diff - same speaker Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) Peaks not significant at P=0.05 5 20 y (mm) x (mm) -60 -40 -20 -50 50

23 -2 -1 1 2 0.5 1.5 -4 4 204 200 3 207 6 7 205 8 202 9 203 10 11 12 206 13 201 14 15 100 Subject id, block experiment Mixed effects Ef Sd T df Delay shift (secs), interaction Contour is: magnitude, stimulus average, T statistic > 5 Random /fixed effects sd smoothed mm FWHM (mm) Peaks not significant at P=0.05 5 20 y (mm) x (mm) -60 -40 -20 -50 50

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