This file was generated on 2025-07-29 by Tatjana Tchumatchenko


A GENERAL INFORMATION

1.	Title of the dataset: Transformations of the spatial activity manifold convey aversive information in CA3

2.	Brief description of the research project and its aims: This dataset accompanies a study investigating how hippocampal CA3 axonal populations integrate spatial and aversive (air puff) information in mice navigating a linear track. The project aims to characterize the representational geometry of spatial coding and its modulation by aversive stimuli in both intermediate-to-dorsal and dorsal-to-dorsal CA3 pathways.

3.	Author Information A. Investigator Contact Information Name: Albert Miguel-Lopez Institution: (Not specified in preprint) Address: (Not specified) Email: (Not specified)
 	B. Project Supervisor (Principal Investigator) Contact Information Name: Tatjana Tchumatchenko Institution: Medical Faculty, University of Bonn Address: (Not specified) Email: (Not specified)
 	C. In case of questions related to this dataset, please contact: Name: Tatjana Tchumatchenko Institution: Medical Faculty, University of Bonn Address: (Not specified) Email: (Not specified)

4.	Date of data collection: 2024-01-01 to 2024-12-31 (approximate range based on preprint date)

5.	Information about funding sources that supported the collection of the data: Deutsche Forschungsgemeinschaft, SFB 1089

6.	Language of the dataset: English

7.	Geographic location of data collection: Animal facility, Medical Faculty, University of Bonn, Germany

B DATA & FILE OVERVIEW

1.	File List:
•	raw_imaging_data/ : Two-photon calcium imaging recordings of CA3 axons
•	processed_manifolds/ : Extracted low-dimensional embeddings of spatial activity
•	metadata.csv : Trial-by-trial stimulus and behavioral annotations
•	analysis_scripts/ : MATLAB and Python code for manifold extraction and decoding
2.	Are there multiple versions of the dataset? no
3.	Relationship between files: Processed manifolds are derived from raw_imaging_data using analysis_scripts, with trial metadata provided in metadata.csv.
4.	Additional related data collected that was not included in the current data package:
•	Whole-cell electrophysiology recordings (not publicly released)

C SHARING/ACCESS INFORMATION
1.	Was data derived from another source? no
2.	Licenses/restrictions placed on the data: CC-BY
3.	Links to publications that cite or use the data: https://github.com/amiguello/aversive_analysis_2025.git
4.	Links to other publicly accessible locations of the data: https://github.com/amiguello/aversive_analysis_2025.git
5.	Links/relationships to ancillary datasets: N/A

D METHODOLOGICAL INFORMATION
1.	Description of methods used for collection/generation of data: Two-photon calcium imaging of GCaMP6f-labeled CA3 projections in head-fixed mice running on a linear track; aversive stimulus delivered as air puff at defined locations.
2.	Methods for processing the data: Motion correction, ROI extraction, ΔF/F calculation, dimensionality reduction via principal component analysis (PCA) and diffusion maps.
3.	Instrument- and/or software-specific information needed to interpret the data:
•	Two-photon microscope (Brand/Model not specified)
•	MATLAB R2024a with custom scripts
•	Python 3.10 with scikit-learn for manifold embedding

4.	People involved in sample collection, processing, analysis and/or submission: Albert Miguel-López, Negar Nikbahkt, Carlos Wert-Carvajal, Lena J. Gschossmann, Martin Pofahl, Heinz Beck, Tatjana Tchumatchenko

5.	Describe any quality-assurance procedures performed on the data: Exclusion of trials with motion artifacts; cross-validation of embedding stability across sessions.

6.	Standards and calibration information: Microscope calibrated daily with fluorescence beads; timing synchronized via TTL pulses.

7.	Environmental/experimental conditions: Mice maintained at 22°C, 12h light/dark cycle, water restriction protocol for motivation.

E DATA-SPECIFIC INFORMATION FOR: metadata.csv

1.	Variable list including full names and definitions:

•	trial_id: Unique identifier for each trial (integer)
•	time_point: Time stamp in seconds (float)
•	x_position: Animal position along track in cm (float)
•	stimulus: ‘none’ or ‘air_puff’ (string)
•	manifold_dim1, manifold_dim2: Coordinates in low-dimensional embedding (float)

2.	Units of measurement used: Seconds (s), centimeters (cm)

3.	Missing data codes/symbols: NaN indicates missing fluorescence values

4.	Specialized formats or other abbreviations used: ΔF/F denotes change in fluorescence over baseline fluorescence