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Tracking the Same Neurons across Multiple Days in Ca2+ Imaging Data.

Liron Sheintuch1, Alon Rubin1, Noa Brande-Eilat1

  • 1Department of Neurobiology, Weizmann Institute of Science, Rehovot 76100, Israel.

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Summary

We developed a new method for automatically registering neurons across multiple calcium imaging sessions. This enables reliable long-term analysis of neural activity with high accuracy and low error rates.

Keywords:
GCaMP6calcium imagingcell registrationfluorescence imaginghippocampusimage alignmentmicroendoscopyminiature microscopesplace cellstwo-photon microscopy

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Area of Science:

  • Neuroscience
  • Computational Biology
  • Data Science

Background:

  • Calcium (Ca²⁺) imaging allows recording neuronal activity over weeks.
  • Longitudinal analysis of neural codes requires accurate cell registration across sessions.
  • Current methods lack quantitative accuracy evaluation, risking data misinterpretation.

Purpose of the Study:

  • To develop an automated method for accurate cell registration across multiple calcium imaging sessions.
  • To provide quantitative confidence estimates for registered cells.
  • To enable reliable longitudinal analysis of neuronal populations.

Main Methods:

  • Developed a probabilistic method for automatic cell registration.
  • Applied the method to large-scale Ca²⁺ imaging data from mouse hippocampus and cortex.
  • Validated registration accuracy and scalability over multiple sessions.

Main Results:

  • The probabilistic method achieved higher accuracy than existing routines.
  • Estimated error rates for cell registration were below 5%.
  • The method demonstrated scalability for numerous sessions and cells.

Conclusions:

  • The developed method enables reliable longitudinal analysis of individual neurons over extended periods.
  • Accurate cell registration is crucial for understanding neural codes.
  • This approach advances the analysis of large-scale neural dynamics.