1. Core 3-1 Schizophrenia NA-MIC
National Alliance for Medical Image Computing
Core 3-1 Schizophrenia
Clinical Neuroscience Division, Laboratory of Neuroscience, Department of Psychiatry, Harvard Medical School
Surgical Planning Laboratory, MRI Division, Department of Radiology Brigham & Women’s Hospital, Harvard Medical School

2. MRI Data
You wanted just published stuff, right? No Anterior Limb of the Internal Capsule or Corpus here…?

3. Data Sets: Raw MRI Data 188 cases total; 82 NC, 30 AFF, 15 SPD, 61 SZ.
Coronal series of contiguous spoiled gradient (SPGR) images (124 slices of 1.5 mm thickness, voxel dimensions x x 1.5 mm). The corresponding files on the BIRN site are:
HUVA########_spgr.nhdr (ASCII header)
HUVA########_spgr.img (binary file: 256x256x124 big endian shorts)
Axial series of contiguous double-echo images (Proton Density and T2 Weighted, 108 slices of 3 mm slice thickness, voxel dimensions x x 3 mm). We split the input into two volumes:
HUVA########_t2w.nhdr (ASCII header)
HUVA########_t2w.img (binary file: 256x256x552 big endian shorts)
HUVA########_pd.nhdr (ASCII header)
HUVA########_pd.img (binary file: 256x256x552 big endian shorts)
You wanted just published stuff, right? No Anterior Limb of the Internal Capsule or Corpus here…?

4. Data Sets: MRI Data, Label Maps
Two types of label maps:
Drawn on raw spgr scan.
Draw on a realigned resampled version of the spgr scan.
ROIs drawn on original SPGR: (256x256x124 big endian shorts)
HUVA########_STG N=17 SZ; N=16 AFF; N=18Ctrl
HUVA########_caudate N=15 SPD; N=14 Ctrl
HUVA########_amyg_hipp N=16 SZ and N=15 Ctrl
Realigned/Resampled SPGR: (256x256xS big endian shorts, S varies from case to case, check header)
HUVA########_realigned
ROIs drawn on Realigned/Resampled data: (256x256xS big endian shorts, S varies from case to case, check header)
HUVA########_MTG_ITG N=23 SZ; N=28 Ctrl
HUVA########_TP_insula N=26 SZ; N=28 AFF; N=29 Ctrl

5. STG, MTG, and ITG Segmented ROIs
(Onitsuka et al., AJP In Press)

6. Insular Cortex and Temporal Pole ROI
(Kasai et al., Arch Gen Psychiatry, 2003)

7. Caudate Nucleus ROI
(Koo et al., In Preparation)

8. DTI Data
You wanted just published stuff, right? No Anterior Limb of the Internal Capsule or Corpus here…?

9. Data Sets: Diffusion Data
80 cases total; 47 NC, 33 SZ.
LSDI scanning sequence, image resolution is x x5mm.
The data is stored in nrrd format, the header has lots of useful information regarding orientation of the file as well as the gradient orientation in world RAS space.
This is not tensor data, it is the raw diffusion data.
The data is stored as 7 consecutive volumes (t2w baseline, followed by the gradients) in one binary file:
HUVA########_dwi.nhdr (ASCII header file)
HUVA########_dwi.img (256x256xSx7 big endian shorts, S is the number of slices which varies, check the header)
Region of Interests: ROIs have been drawn for two different structures:
HUVA########_fornix_l1z N=24 SZ; N=31 NC
HUVA########_cingulum_bundle N=30 SZ; N=42 NC

10. Cingulum Bundle
ROI was drawn on 8 consecutive slices. The fiber tract is much longer, however, but not easy to delineate.
(Kubicki et al., 2003)

11. Fornix ROI drawn on 1slice perpendicular to the plane.
Would be nice to have figure from Nori’s poster, that shows whole fornix 3D model drawn on the SPGR. I do not have it…
(Kuroki et al., in press)