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 'miccaiDTIChallenge_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. 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

• 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

• VTK file: patient1_tract_coordinate-firstAuthorName.vtk
• Nrrd file: patient1_tract_enveloppe-firstAuthorName.nhdr and patient1_tract_enveloppe-firstAuthorName.nhdr
• PNG file: firstAuthorName_tract_axialView.png; firstAuthorName_tract_sagittalView.png; firstAuthorName_tract_coronalView.png

Back to DTI Tractography Challenge MICCAI 2011