Arican_et_al_2023_sensorimotor_transformation/README.md

Mushroom body encodes behavioral decision

Overview

This repository contains data collected during the experiments described in "The mushroom body output encodes behavioral decision during sensory-motor transformation" (Arican et al. (2023)). The data includes spike times and stimulation protocols for olfactory stimuli. Additionally, behavioral data and normalized PID recordings are provided.

Experimental Details

Stimulus Codes

• A = benzaldehyde
• B = 2-heptanone
• C = isoamyl acetate
• D = octanal
• E = control
• F = 1-hexanol
• G = trans-cinnamaldehyde
• H = 1-heptanol
• I = heptanal
• J = 1-pentanol
• K = 1-octanol

Ignored Codes

• L, M, N, O, and P do not encode olfactory stimuli and can be ignored.

Data Files

.mat Files

Each .mat file contains the following data in structs:

• Struct ending with _Ch5: Spike times in .times [s] with respective unit IDs in .codes
• Struct ending with _Ch31: Stimulus times in .times [s] with respective Stimulus IDs in .codes
• Struct ending with _Ch32: Exact stimulus onset and offset times [s] in .times with respective ID for on- and offset .codes.
  • 1 = stimulus onset
  • 0 = stimulus offset

Excel File

The Excel file contains the following behavioral data:

• Time [s]: Stimulus onset [s]
• Stimulus-ID: Stimuli of each trial (see above for codes)
• MLR: Behavioral output per trial (1: MLR; 0: no MLR)
• Animal-ID: Animal ID corresponding to .mat files (see Table S1)
• MLR-Time-[sec]: Beginning of MLR [s]

.pkl File

PID.pkl contains two normalized PID recordings (PIDID: PID33; PID34) averaged over 10 trials for ten different odors (Stimuli: see odor codes above). The column "PID" contains the values of odor intensity, and "Time" contains the respective timepoint.

• PID33: Recorded from the position of the cockroach head (4 cm from the outlet of the odor supply system)
• PID34: Recorded from the position of the antennal tip (directly at the outlet of the odor supply system)

General Notes

• For further analysis, the exact onset and offset times have been shifted by 90 ms since the odor occurred only after 90 ms at the antennal tip. The behavioral onsets were also aligned to that shift during the analysis.

Downloading the data

The data can be either downloaded via the command line or via the browser.

Using the command line with git annex

Make sure git and git-annex are installed on your computer. Create an account on gin and upload your public SSH key to your gin profile. Then clone the repository using

git clone git@gin.g-node.org:/nawrotlab/Arican_et_al_2023_sensorimotor_transformation.git
cd Arican_et_al_2023_sensorimotor_transformation
git annex get *

Large files (>10MB) are replaced by placeholders. These filed are downloaded by the last command.

Using the browser

Download the latest release as a zip file by clicking on Releases on the main page at https://gin.g-node.org/nawrotlab/Arican_et_al_2023_sensorimotor_transformation.git. This zip file contains most mat files with the spikesorted data and a csv file containing the behavioral data. Some mat files are larger than 10 MB and are replaced by placeholders. These files can be downloaded individually from the GIN repository (CA63, CA65a, CA71, CA73, CA76b, CA79a, CA79b, CA81).