Work Description

Date: 23 December, 2024 Dataset Title: Data in support of the study �Erasable Hippocampal Neural Signatures Predict Memory Discrimination� Dataset Creators: N.R. Kinsky and B.Kim Dataset Contact: Nat Kinsky nkinsky@umich.edu Funding: NIH Grants R01 MH052090, R01 MH051570, R01MH117964, R01NS115233, NSF Award 2423995, NIH NRSA Fellowship 1F32NS117732-01, NIH Early Independence Award DP5 OD023106-01, an NIH Transformative R01 Award, a Young Investigator Grant from the Brain and Behavior Research Foundation, a Ludwig Family Foundation grant, and the McKnight Foundation Memory and Cognitive Disorders award, and Boston University�s Neurophotonics Center. Key Points: - We examine the effects of the protein synthesis inhibitor, anisomycin, on long term memory consolidation and hippocampal neural dynamics. - We find mice which undergo contextual fear conditioning exhibit learning-related place field remapping and develop coordinated neural activity predictive of memory recall (freezing) events - Mice treated with anisomycin immediately following learning, as well as untreated mice which exhibit poor memory, do no exhibit place field remapping or coordinated freeze-predictive activity Research Overview: This study investigates the effects of arresting protein synthesis on hippocampal dynamics. Methodology: The data were obtained using in-vivo calcium imaging with a microendoscope in region CA1 of the dorsal hippocamps of freely moving mice expressing GCaMP6f. Behavioral data were captured through synchronized video recordings obtained with Cineplex and FreezeFrame software. Electrophysiological data in this study was obtained from Long Evans rats implanted with multi-shank or linear silicon probes using an Intan 1024 channel recording controller and OpenEphys software. Date Coverage: 2019-2021 Files contained here: - .mat files contain processed calcium imaging neural data in MATLAB compatible format - .npy and .pkl files contain processed neural and behavioral data in Python compatible format. - .csv files contain mouse behavioral position data Folder and file structure: - Recording Mice: contains all imaging and behavioral data recorded from mice in the following sub-folders: - Anisomycin Group / Control Group folders Processed data for each recording session, broken down by mouse (all named "MarbleXX"). - Folder naming convention: YYYYMMDD_session#_arena. - files in the 'freeze-frame' folder contain behavioral data obtained using FreezeFrame software and cameras during fear conditioning. - FinalOutput.mat contains extracted neuron ROIs and calcium traces using Tenaspis software in MATLAB listed below. - other .mat files were generated using image registration functions in MATLAB at the ImageCamp repository listed below to match neuron ROIs across sessions. - all .npy and .csv files were generated using Python code found in the Eraser repository - Group Data folder: contains all processed data saved to .npy files generated by Jupyter Notebooks for figure generation located at https://github.com/nkinsky/Eraser - SessionDirectories: houses the SessionDirectories.csv file which contains location of all sessions on a user's computer for easy access using functions in the session_directory.npy file in the https://github.com/nkinsky/FearReinstatement repository. - Recording Rats: contains electrophysiological and behavioral data from two rats who underwent saline or anisomycin injections. - Folder structure: Animal_name / YYYY_MM_DD_Sessionname / X_sub_session_name - .eeg files are binary files (int16, 35 channels, 1250 Hz sampling rate) obtained during the experiment - .npy files contain spiking and ripple / theta data obtained using NeuroPy - .csv file contains event (injection, recording, etc.) times - .clu and .evt files contain data regarding spiking and events (e.g. SWRs, artifacts, population bursts, etc.) for visualization in NeuroScope. - files in the "spyk-circ" folder contain cluster data after cluster extraction using Spyking-circus and manual curation with Phy. . .ipynb files contain all the code used to generate figures for Kinsky, Orlin et al.. Code used to process imaging movies, generate figures, and access the data can be found at https://github.com/nkinsky/scopix, https://github.com/nkinsky/ImageCamp, https://github.com/nkinsky/Eraser, https://github.com/nkinsky/FearReinstatement, and https://github.com/nkinsky/NeuroPy. Related publication(s): Erasable Hippocampal Neural Signatures Predict Memory Discrimination. Kinsky, N.R.; Orlin, D.O.; Ruesch, E. A.; Coello, S.; Diba, K; Ramirez, S., Cell Reports, in press Use and Access: This data set is made available under an Attribution 4.0 International (CC BY 4.0) license. To Cite Data: Link TBD