Gonçalves Lab data repository
Published April 5, 2024 | Version v1
Dataset Open

Adult neurogenesis improves spatial information encoding in the mouse hippocampus - RetroAAV-EE

Authors/Creators

  • 1. ROR icon Albert Einstein College of Medicine

Description

In vivo two-photon imaging dataset for Frechou et al. "Adult neurogenesis improves spatial information encoding in the mouse hippocampus"

This dataset includes data from retro-AAV injected mice that were housed in an enriched environment (EE). 

For each recording we included raw imaging data consisting of:

  • Individual frames (.tif files) from 3 consecutive 3 min Ca2+ imaging movies (which were concatenated for analysis)
  • Microscope settings metadata (Experiment.xml)
  • Mouse location data (Episode001.h5 in SyncData folder) containing rotary encoder and RFID data

Some analyzed data is also included:

  • Suite2p analysis data (Suite2p folder)
  • fluorescence.npy contains raw fluorescence data (the F output of Suite2p data extraction). Rows are individual cells and columns are frames (i.e. timepoints) acquired at 15.253 Hz.
  • positions.npy contains the position of the mouse on the treadmill belt indexed from 0 to 100.

Both NumPy(.npy) files are the output of the Preprocessing.py code, part of the analysis pipeline used for data analysis in the original publication, which can be found at https://github.com/GoncalvesLab/Frechou-et-al-Neurogenesis

All imaged mice in this dataset were male. Refer to the original publication for additional information. 

Notes

ACKNOWLEDGEMENTS

We thank Dr. Jake Jordan, Roland Ferger, Elizabeth Wood, Dr. Maria Gulinello, Kevin Fisher, Dr. Mimi Kim and Dr. Sacha Sokoloski for technical advice, assistance and discussions. M.A.F. was supported by a Fulbright Scholarship. M.A.F. and K.D.M. were funded by The Einstein Training Program in Stem Cell Research from the Empire State Stem Cell Fund through New York State Department of Health Contract C34874GG. J.T.G. was supported by the Whitehall Foundation (Research Grant 2019-05-71) and the National Institutes of Health (NINDS R01NS125252-01A1). R.C.C. was supported by the National Institutes of Health (NEI R01EY030578, NIDA RF1DA056400). Confocal microscopy experiments were supported by a  shared instrumentation grant (1S10OD025295-01A1). This article is dedicated to the memory of Dr. Paul S. Frenette (1965-2021) who provided invaluable encouragement and support for this project.

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