Analyzing engram reactivation and long-range connectivity

Ron Refaeli*, Tirzah Kreisel*, Inbal Goshen

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review


Here, we present a protocol for marking engram cells to efficiently measure reactivation levels and their projection pathways. We describe steps for genetic manipulation utilizing transgenic mice and viral infections, labeling engram cells, and a modified version of CLARITY, a tissue-clearing technique. This protocol can be adapted to various research inquiries that involve assessing the overlap of cell populations and uncovering novel long-range connectivity pathways. For complete details on the use and execution of this protocol, please refer to Refaeli et al. (2023).1

Original languageAmerican English
Article number102840
JournalSTAR Protocols
Issue number1
StatePublished - 15 Mar 2024

Bibliographical note

Publisher Copyright:
© 2024 The Authors


  • Behavior
  • Microscopy
  • Model Organisms
  • Neuroscience


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