Volume 2 Supplement 1

Proceedings of the 4th PSMR Conference on PET/MR and SPECT/MR

Open Access

Pseudo-CT generation in brain MR-PET attenuation correction: comparison of several multi-atlas methods

  • Ines Merida1, 2, 3,
  • Nicolas Costes2, 4,
  • Rolf Heckemann5 and
  • Alexander Hammers2, 6
EJNMMI Physics20152(Suppl 1):A29


Published: 18 May 2015

Simultaneous MR-PET imaging opens new perspectives for understanding many aspects of brain function. However, accurate brain attenuation correction (AC) is required for absolute PET quantification. Radiodensity maps for AC are not readily available in PET-MR. Various strategies have been proposed to generate substitute attenuation maps. Recently, it has been shown that multiatlas techniques for AC outperform methods based on MR imaging sequences, such as Ultrashort-Echo-Time. We recently investigated several multiatlas methods to build a patient-specific pseudoCT, all based on multiatlas registration and label propagation, and introduced a novel maximum probability method (MaxProb). Here, a new database of 40 MR/CT image pairs (atlases) was used. Pairwise nonrigid registration of each atlas MR image to the target MR image yielded a geometric transformation that we used for propagating the atlas CT into the target’s space. The synthetic CT was generated by voxelwise atlas selection and intensity averaging. We implemented a state-of-the-art algorithm along with two variants and MaxProb. A pseudoCT was generated for each subject of the database and assessed by comparison with the real CT in a leave-one-out scheme. Jaccard overlap indices were computed per tissue class (air, soft tissue, and bone). Voxel classification error was also assessed. The Jaccard indices and voxel classification error showed that MaxProb (8.31±1.12%) performed slightly better than Ref (8.65±0.93%). The influence of the number of atlases fused in pseudoCT generation was studied, showing that an optimal number improves accuracy. By adjusting the number of fused atlases, it was possible to significantly improve on Ref (8.46±0.96%). The methods now need evaluation on quantitative PET data to identify potential benefits in PET analysis.

Authors’ Affiliations

Université de Lyon 1, INSERM, CNRS, Lyon Neuroscience Research Center
LILI-EQUIPEX – Lyon Integrated Life Imaging: hybrid MR-PET
Siemens Healthcare France SAS, Saint-Denis
CERMEP-Imagerie du vivant
MedTech West at Sahlgrenska University Hospital
Neurodis Foundation Lyon


© Merida et al; licensee Springer. 2015

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.