Post on 18-Dec-2015
National Alliance for Medical Image Computing http://na-mic.org
Core 3-1 Schizophrenia
NA-MICNational Alliance for Medical Image Computing http://na-mic.org
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
National Alliance for Medical Image Computing http://na-mic.org
Data• All the legacy data has been converted to one single file format,
nrrd.• Total of 188 morphological cases and 80 diffusion cases have
been uploaded. • Each case has a unique BIRN identifier. Information about
diagnosis, data parameters and labels associated with Region of Interests (ROI) are on the BIRN site in the following Excel files:
- morph-NAMIC.xls : Gives diagnosis, age, gender as well as the ROIs drawn for each morphological case.
- morph-ROI-description.xls: Gives for each ROI set, the label corresponding to specific structures.
- diffusion-NAMIC.xls: Gives diagnosis, age, gender, ROIs drawn and when existing, the corresponding morphological data ID number.
- diffusion-ROI-description.xls: Gives or each ROI set, the label corresponding to specific structures.
National Alliance for Medical Image Computing http://na-mic.org
Data Sets Already Uploaded
MRI Data: • Raw SPGR (124 slices of 1.5 mm thickness, voxel dimensions 0.9375 x 0.9375 x 1.5
mm): (N=26 SZ; N=28 AFF; N=29 Ctrl).• ROIs- Amygdala-Hippocampus: (N=16 SZ and N=15 Ctrl). - STG: (N=17 SZ; N=16 AFF; N=18Ctrl).- MTG & ITG: (N=23 SZ; N=28 Ctrl).- Caudate: (N=15 SPD; N=14 Ctrl).- Insular Cortex & Temporal Pole: (N=26 SZ; N=28 AFF; N=29 Ctrl).DTI Data:• Raw DWI data (8 images- six gradient directions plus 2 T2W, FOV 220mm, 256 x
256 image matrix, 4 mm slice thickness, 1 mm interslice distance).• ROIs- Cingulum Bundle: (N=31 SZ; N=42 Ctrl).- Fornix: (N=24 SZ; N=31 Ctrl).
National Alliance for Medical Image Computing http://na-mic.org
MRI Data
National Alliance for Medical Image Computing http://na-mic.org
A B
STG
MTG
ITG
STG
MTG
ITG
ab
c de
fg
h
STG, MTG, and ITG Segmented ROIs
(Onitsuka et al., AJP In Press)
National Alliance for Medical Image Computing http://na-mic.org
(Kasai et al., Arch Gen Psychiatry, 2003)
Insular Cortex and Temporal Pole ROI
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Caudate Nucleus ROI
(Koo et al., In Preparation)
National Alliance for Medical Image Computing http://na-mic.org
DTI Data
National Alliance for Medical Image Computing http://na-mic.org
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)
National Alliance for Medical Image Computing http://na-mic.org
Fornix
ROI drawn on 1slice perpendicular to the plane.
(Kuroki et al., in press)
National Alliance for Medical Image Computing http://na-mic.org
Rules for accessing and using the data
• IRB training (human subject’s protection)
• Data sharing (do not give data to other people)
• ROI data publication acknowledgement
• Grant acknowledgement- NIGHS/NI - U54 GM 072977 to Ron Kikinis- NIH - P41 RR13218 to Ron Kikinis; RO1 NS39335 to Stephan Maier; R01 MH 50747 to Martha
Shenton; K05 MH 70047 to Martha Shenton; R01 MH 40799 to Robert McCarley; R03 MH 068464 to Marek Kubicki.
- VA- Merit Awards to Martha Shenton and to Robert McCarley and a Research Enhancement Award Program (VA REAP) to Robert McCarley and to Martha Shenton.