Volume XLII-2/W12
Int. Arch. Photogramm. Remote Sens. Spatial Inf. Sci., XLII-2/W12, 185-188, 2019
https://doi.org/10.5194/isprs-archives-XLII-2-W12-185-2019
© Author(s) 2019. This work is distributed under
the Creative Commons Attribution 4.0 License.
Int. Arch. Photogramm. Remote Sens. Spatial Inf. Sci., XLII-2/W12, 185-188, 2019
https://doi.org/10.5194/isprs-archives-XLII-2-W12-185-2019
© Author(s) 2019. This work is distributed under
the Creative Commons Attribution 4.0 License.

  09 May 2019

09 May 2019

PREPROCESSING AND REGISTRATION OF MINISCOPE-BASED CALCIUM IMAGING OF THE RODENT BRAIN

T. B. Sagindykov1, A. R. Brazhe2, and D. V. Sorokin1 T. B. Sagindykov et al.
  • 1Laboratory of Mathematical Methods of Image Processing, Faculty of Computational Mathematics and Cybernetics, Lomonosov Moscow State University, Moscow, Russia
  • 2Department of Biophysics, Faculty of Biology, Lomonosov Moscow State University, Moscow, Russia

Keywords: image registration, neurons, live tissue imaging, miniscope

Abstract. Microscopic imaging is central to the brain and cognition studies in animals and often requires advanced image processing. In vivo recordings on awake behaving animals require stabilization of the images as the tissue in the images undergoes non-rigid deformations due to animal movement, pulse beat and breathing of the animal. Here we propose an approach to compensation for the tissue motion in calcium imaging data acquired with miniaturized wearable microscopes (miniscopes) from live rodent brains. Our approach includes preprocessing of the images in which we compensate for non-uniform illumination, remove calcium transients and instrument-specific noise. For image registration we use the multiscale mutual information based non-rigid algorithm with B-spline transformation model. We present the preliminary results of such motion compensation approach applied to the real miniscope image stacks.