Visualizing and mapping the cerebellum with serial optical coherence scanner

Chao J. Liu, Kristen E. Williams, Harry T. Orr, Taner Akkin

Research output: Contribution to journalArticlepeer-review

14 Scopus citations


We present the visualization of the mouse cerebellum and adjacent brainstem using a serial optical coherence scanner, which integrates a vibratome slicer and polarization-sensitive optical coherence tomography for ex vivo imaging. The scanner provides intrinsic optical contrasts to distinguish the cerebellar cortical layers and white matter. Images from serial scans reveal the large-scale anatomy in detail and map the nerve fiber pathways in the cerebellum and brainstem. By incorporating a water-immersion microscope objective, we also present high-resolution tiled images that delineate fine structures in the cerebellum and brainstem.

Original languageEnglish (US)
Article number011006
Issue number1
StatePublished - Jan 1 2017

Bibliographical note

Funding Information:
Acknowledgments This work was supported by research grants from the US National Science Foundation (No. NSF, CBET-1510674) and the Bob Allison Ataxia Research Center (BAARC) at the University of Minnesota. The authors would like to thank Orion Rainwater for helping with tissue preparation, and Minnesota Supercomputing Institute for the high-performance computing resources.

Publisher Copyright:
© 2016 Society of Photo-Optical Instrumentation Engineers (SPIE).


  • Cerebellum
  • brainstem
  • fiber orientation
  • optical coherence tomography
  • polarization


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