Simulated brainweb PET/MR data sets for denoising and deblurring

The data set consists of 20 subjects based on the normal anatomical models from the brainweb phantom.

https://brainweb.bic.mni.mcgill.ca/

For each subject the data is organized as follows:

• subjectXX

  • mu.nii.gz -> (attenuation image)

  • t1.nii.gz -> (high resolution and low noise T1 MR)

  • sim_0 -> first simulated PET acquisition

    • true_pet.nii.gz -> true tracer uptated
    • osem_psf_counts_0.0E+00.nii.gz -> OSEM recon of simulated noise free data
    • osem_psf_counts_1.0E+07.nii.gz -> OSEM recon of simulated noisy data (1e7 counts) -> high noise level
    • osem_psf_counts_5.0E+08.nii.gz -> OSEM recon of simulated noisy data (5e8 counts) -> low noise level

  • sim_1 -> second simulated PET acquisition

    • osem_psf_counts_0.0E+00.nii.gz
    • osem_psf_counts_1.0E+07.nii.gz
    • osem_psf_counts_5.0E+08.nii.gz
    • true_pet.nii.gz

  • sim_2 -> third simulated PET acquisition

    • osem_psf_counts_0.0E+00.nii.gz
    • osem_psf_counts_1.0E+07.nii.gz
    • osem_psf_counts_5.0E+08.nii.gz
    • true_pet.nii.gz

All data sets have a shape of (256,256,258) and a voxel size of 1mm x 1mm x 1mm and are provided in nifti format. All PET acquisitions have different contrasts. PET data was simulated with a projector that approximates the geometry and resolution of the Siemens Biograph mMR.

The T1 MR scans and antomical models used to create the ground truth PET images are taken from the BrainWeb: Simulated Brain Database.

See:

• http://www.bic.mni.mcgill.ca/brainweb/
• C.A. Cocosco, V. Kollokian, R.K.-S. Kwan, A.C. Evans : "BrainWeb: Online Interface to a 3D MRI Simulated Brain Database"
  NeuroImage, vol.5, no.4, part 2/4, S425, 1997 -- Proceedings of 3-rd International Conference on Functional Mapping of the Human Brain, Copenhagen, May 1997.
• R.K.-S. Kwan, A.C. Evans, G.B. Pike : "MRI simulation-based evaluation of image-processing and classification methods"
  IEEE Transactions on Medical Imaging. 18(11):1085-97, Nov 1999.
• R.K.-S. Kwan, A.C. Evans, G.B. Pike : "An Extensible MRI Simulator for Post-Processing Evaluation"
  Visualization in Biomedical Computing (VBC'96). Lecture Notes in Computer Science, vol. 1131. Springer-Verlag, 1996. 135-140.
• D.L. Collins, A.P. Zijdenbos, V. Kollokian, J.G. Sled, N.J. Kabani, C.J. Holmes, A.C. Evans : "Design and Construction of a Realistic Digital Brain Phantom"
  IEEE Transactions on Medical Imaging, vol.17, No.3, p.463--468, June 1998