Tc1 Mouse cerebellum atlas (Tc1 Mouse cerebellum atlas with Purkinje layer segmentation)

Introduced by Ma et al. in Grey matter sublayer thickness estimation in themouse cerebellum

This mouse cerebellar atlas can be used for mouse cerebellar morphometry.

We recommend to use Multi Atlas Segmentation and Morphometric analysis toolkit (MASMAT) for mouse brain MRI along with other mouse brain atlases in this repo.


  • If you're using the this mouse MRI cerebellar atlas in your paper, we ask you to please kindly cite the following papers:
  • Ma, D., Cardoso, M. J., Zuluaga, M. A., Modat, M., Powell, N. M., Wiseman, F. K., Cleary, J. O., Sinclair, B., Harrison, I. F., Siow, B., Popuri, K., Lee, S., Matsubara, J. A., Sarunic, M. V, Beg, M. F., Tybulewicz, V. L. J., Fisher, E. M. C., Lythgoe, M. F., & Ourselin, S. (2020). Substantially thinner internal granular layer and reduced molecular layer surface in the cerebellum of the Tc1 mouse model of Down Syndrome – a comprehensive morphometric analysis with active staining contrast-enhanced MRI. NeuroImage, 117271.
  • Ma, D., Cardoso, M. J., Zuluaga, M. A., Modat, M., Powell, N., Wiseman, F., Tybulewicz, V., Fisher, E., Lythgoe, M. F., & Ourselin, S. (2015). Grey Matter Sublayer Thickness Estimation in the Mouse Cerebellum. In Medical Image Computing and Computer Assisted Intervention 2015 (pp. 644–651).


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