DTI Tractography Challenge Datasets
Neurosurgical Datasets
Neurosurgical Case 1
- Clinical Case: Astrocytoma, World Health Organization (WHO) grade III
- Acquistion Parameters
Data were acquired on a 3.0-T scanner (EXCITE Signa scanner,
GE Medical System, Milwaukee, Wisconsin) with Excite 14.0 using an
8-channel head coil.
T1 SPGR: TR=7500 ms; TE=30 ms; matrix 256x256; FOV 25.6 cm ; 1-mm slice thickness
T2 GRE: TR=8000 ms; TE=98 ms; matrix 512x512; voxel size 0.5 x 0.5 x 1.5 mm
DWI Singe shot EPI: TR=14 000ms; TE=30 ms; 31 gradient directions, 1 baseline ; b-value = 1000 s/mm2 ; matrix 128x128; 2.6 mm slice thickness
Segmentation: The file patient1-tumor.nhdr & raw is labelmap which contains the segmented structures: label #1 represents the solid part of the tumor; label #2 represents the cystic part of the tumor.
Neurosurgical Case 2
- Clinical Case: Oligoastrocytoma,WHO grade II
- Acquistion Parameters
Data were acquired on a 3.0-T scanner (EXCITE Signa scanner,
GE Medical System, Milwaukee, Wisconsin) with Excite 14.0 using an
8-channel head coil.
T1 SPGR: TR=7500 ms; TE=30 ms; matrix 256x256; FOV 25.6 cm ; 1-mm slice thickness
T2 GRE: TR=8000 ms; TE=98 ms; matrix 512x512; voxel size 0.5 x 0.5 x 1.5 mm
DWI Single shot EPI: TR=14 000ms; TE=30 ms; 55 gradient directions, 1 baseline ; b-value = 1000 s/mm2 ; matrix 128x128; 2.6 mm slice thickness
Segmentation: The file patient2-tumor.nhdr & raw is labelmap which contains the segmented structures: label #1 represents the solid part of the tumor; label #2 represents the cystic part of the tumor.
Neurosurgical Case 3
- Clinical Case: Pending
- Acquisition Parameters:
- T1 Axial SPGR: matrix 256x256; voxel size 1 x 1 x 1.4 mm, volume size 256 x 256 x130
- T2 matrix 512x512; voxel size 0.5 x 0.5 x 1.5 mm, volume size 512 x 512 x 100
- DWI matrix 256 x256; voxel size 1 x 1 x 2.6 mm, 31 gradient directions, 1 baseline , b-value = 1000 s/mm2; volume size 256 x 256 x 32 x 52
Neurosurgical Case 4
- Clinical Case: Pending
- Acquisition Parameters:
- T1 Axial SPGR: matrix 256x256; voxel size 1 x 1 x 1.4 mm, volume size 256 x 256 x130
- T2 matrix 512x512; voxel size 0.5 x 0.5 x 1.5 mm, volume size 512 x 512 x 100
- DWI matrix 256 x256; voxel size 1 x 1 x 2.6 mm, 31 gradient directions, 1 baseline , b-value = 1000 s/mm2; volume size 256 x 256 x 32 x 52
Control subjects Datasets
Two adult control subject datasets will be available for this challenge. For each subject we have 10 repetitions of the structural and diffusion-weighted acquisitions. All scans were acquired on the same type of scanner (Siemens Tim Trio) at 5 different institutions.
Details of the DWI acquisition parameters:
- 25 gradient directions + 1 baseline
- Variable b-value (range between 40 and 1000): each diffusion weighted image has a different b value.
- Spacial resolution of 1.97x1.97x2mm
- Image size 96x96x81
Details of DTI estimation:
- Tensor estimation using weighted least square algorithm
Details of the structural acquisition. We provide two sets of images:
- Original T1 and T2 (size: 160x224x256, spacing: 1x1x1mm)
- T1 and T2 registered and resampled to baseline (size: 96x96x81, spacing: 1.97x1.97x2mm) (Affine + BSpline)
File format and naming convention for submission
The results should be sent in a zip archive or tarball file named 'miccai2011DTIChallenge_firstAuthorName.zip'. For each case, the results should be submitted in the following formats: 1) 3D coordinate of the tracts: vtkPolydata ASCII VTK file format; 2) enveloppe of the tracts: ITK-readable Nrrd file format 3) anatomical views (axial, coronal, sagittal) of individual and paired corticospinal tracts with a black background, in png file format
An example of the naming convention to be used for Patient1 and HealthySubject1 is given below:
- Patient1:
patient1_left_tract.vtk
patient1_right_tract.vtk
patient1_left_enveloppe.nhdr
patient1_left_enveloppe.raw
patient1_right_enveloppe.nhdr
patient1_right_enveloppe.raw
patient1_left_tract_axial_view.png
patient1_left_tract_coronal_view.png
patient1_left_tract_sagittal_view.png
patient1_right_tract_axial_view.png
patient1_right_tract_coronal_view.png
patient1_right_tract_sagittal_view.png
patient1_left_and_right_tract_axial_view.png
patient1_left_and_right_tract_coronal_view.png
patient1_left_and_right_tract_sagittal_view.png
- Healthy subject1
healthysubject1_scan1_left_tract.vtk
healthysubject1_scan1_right_tract.vtk
...
healthysubject1_scan10_left_tract.vtk
healthysubject1_scan10_right_tract.vtk
healthysubject1_scan1_left_enveloppe.nhdr
healthysubject1_scan1_left_enveloppe.raw
...
healthysubject1_scan10_left_enveloppe.nhdr
healthysubject1_scan10_left_enveloppe.raw
healthysubject1_scan1_right_enveloppe.nhdr
healthysubject1_scan1_right_enveloppe.raw
...
healthysubject1_scan1_right_enveloppe.nhdr
healthysubject1_scan1_right_enveloppe.raw
healthysubject1_scan1_left_tract_axial_view.png
healthysubject1_scan1_right_tract_coronal_view.png
patient1_left_tract_sagittal_view.png
patient1_right_tract_axial_view.png
patient1_right_tract_coronal_view.png
patient1_right_tract_sagittal_view.png
patient1_left_and_right_tract_axial_view.png
patient1_left_and_right_tract_coronal_view.png
patient1_left_and_right_tract_sagittal_view.png
