probability atlas of the subtantia niagra

Description: A probabilistic anatomical SN atlas label based on the segmentation through majority voting from multi-atlases (majority voting only with multiple anatomical atlases) A majority voting method was implemented to generate an individual substantia niagra segmentation from six distinct warped atlas images [1–6]. This approach utilized population probabilities and maintained the consistency of individual voxel intensities within target regions. To this end, we applied ANTs deformable registration with normalized cross-correlation (2-mm radius, 3-mm smoothing of the deformation map) of joint T1w/T2w (preprocessed: bias-field correction, skull stripping, a rigid transform into the standard MNI brain, and correcting intensity inhomogene- ity using N4). The majority voting method was then applied across six seg- ments using a criterion where the threshold exceeded 50 % probability. The final majority-voted segment of each individual was transformed to the 1mm-MNI space and averaged across 157 individuals, resulting in probability information. In the OSF link provided, you can find atlases with different age groups (children, adults, all). https://osf.io/z49dv/ 1. https://www.nitrc.org/frs/?group_id=653 2. https://www.nitrc.org/projects/brainstemnavig/ 3. Zhang, Y., Larcher, K. M. H., Misic, B., & Dagher, A. (2017). Anatomical and functional organization of the human substantia nigra and its connections. Elife, 6, e26653. 4. Xiao, Y., Fonov, V., Chakravarty, M. M., Beriault, S., Al Subaie, F., Sadikot, A., ... & Collins, D. L. (2017). A dataset of multi-contrast population-averaged brain MRI atlases of a Parkinson׳ s disease cohort. Data in brief, 12, 370-379. 5. Pauli, W. M., Nili, A. N., & Tyszka, J. M. (2018). A high-resolution probabilistic in vivo atlas of human subcortical brain nuclei. Scientific data, 5(1), 1-13. 6. Talairach atlas

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