Quantifying inter-individual anatomical variability in the subcortex using 7T structural MRI

M. C. Keuken, P. L. Bazin, L. Crown, J. Hootsmans, A. Laufer, C. Müller-Axt, R. Sier, E. J. van der Putten, A. Schäfer, R. Turner, B. U. Forstmann

Research output: Contribution to journalArticlepeer-review

124 Scopus citations


Functional magnetic resonance imaging (MRI) data are usually registered into standard anatomical space. However, standard atlases, such as LPBA40, the Harvard-Oxford atlas, FreeSurfer, and the Jülich cytoarchitectonic maps all lack important detailed information about small subcortical structures like the substantia nigra and subthalamic nucleus. Here we introduce a new subcortical probabilistic atlas based on ultra-high resolution in-vivo anatomical imaging from 7. T MRI. The atlas includes six important but elusive subcortical nuclei: the striatum, the globus pallidus internal and external segment (GPi/e), the subthalamic nucleus, the substantia nigra, and the red nucleus. With a sample of 30 young subjects and carefully cross-validated delineation protocols, our atlas is able to capture the anatomical variability within healthy populations for each of the included structures at an unprecedented level of detail. All the generated probabilistic atlases are registered to MNI standard space and are publicly available.

Original languageEnglish (US)
Pages (from-to)40-46
Number of pages7
StatePublished - Jul 1 2014
Externally publishedYes


  • Anatomical atlas
  • Basal ganglia
  • Red nucleus
  • Substantia nigra
  • Subthalamic nucleus

ASJC Scopus subject areas

  • Neurology
  • Cognitive Neuroscience


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