A Large Deformation Diffeomorphic Approach to Registration of CLARITY Images via Mutual Information

  title={A Large Deformation Diffeomorphic Approach to Registration of CLARITY Images via Mutual Information},
  author={Kwame S. Kutten and Nicolas Charon and Michael I. Miller and J. Tilak Ratnanather and Jordan K. Matelsky and Alex Baden and Kunal Lillaney and Karl Deisseroth and Li Ye and Joshua T. Vogelstein},
  booktitle={International Conference on Medical Image Computing and Computer-Assisted Intervention},
CLARITY is a method for converting biological tissues into translucent and porous hydrogel-tissue hybrids. This facilitates interrogation with light sheet microscopy and penetration of molecular probes while avoiding physical slicing. In this work, we develop a pipeline for registering CLARIfied mouse brains to an annotated brain atlas. Due to the novelty of this microscopy technique it is impractical to use absolute intensity values to align these images to existing standard atlases. Thus we… 

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