DOI: 10.6084/m9.figshare.13274951.v1
title: Kafashan et al., mouse V1 response data

description: <b>Information Scaling in Large Neural Populations</b><br><br>This repository contains the neural data used in the following article:<br><br>MohammadMehdi Kafashan, Anna W Jaffe, Selmaan N Chettih, Ramon Nogueira, Iñigo Arandia-Romero, Christopher D Harvey, Rubén Moreno-Bote, Jan Drugowitsch (2020). <i>Scaling of sensory information in large neural populations reveals signatures of information-limiting correlations</i>. Under review.<br><br>The data was collected by Anna Jaffe and Selmaan Chettih. The MATLAB code to reproduce the figures in the above manuscript is available at https://github.com/DrugowitschLab/SensoryInformationScaling/.<br><br>We recorded neural activity in visual cortex V1 of male mice between 4-7 months of age in response to drifting gratings using a custom-built two-photon microscope. Visual stimuli consisted of square-wave gratings presented on a grey background to match average luminance across stimuli. Gratings were windowed outside of a central circle of radius 20 degrees with a Gaussian of 19 degrees standard deviation, or windowed with a Gaussian central aperture mask of 44 degrees standard deviation (for mice 1 and 2 only) to prevent monitor edge artifacts. Grating drift directions were pseudo-randomly sampled from 45-360° in 45° increments at 10% or 25% contrast, spatial frequency of 0.035 cycles per degree, and temporal frequency of 2 Hz. Stimuli were presented for 500 ms, followed by a 500 ms grey stimulus during the inter-stimulus interval (1 Hz presentation). <br><br>Multiple experiments conducted in each mouse were performed at different locations within V1 or different depths within layer 2/3 (120-180 μm below the brain surface).<br><br>Please consult the above manuscript and associated analysis code for a more detailed description of the experiments, the used stimuli and their timing, and the performed image processing.<br><br>Each dataset is stored in MATLAB format, `.mat`, named by mouse ID and date. Each dataset includes multiple variables, the following of which are the most important for performing the information scaling analysis reported in the manuscript:<br><br>1. "deResp": matrix with nTrials x nCells values of each trial's response.<br>2. "visOri": vector with nTrials values of grating drift direction.<br>3. "visCon": vector with nTrials values indicating the contrast of visual stimuli.<br><br>We collected data from 6 mice, and across 24 sessions, as provided by the following files:<br>- mouse 1 session a - m25a - m25_170512.mat<br>- mouse 1 session b - m25b - m25_170523.mat<br>- mouse 2 session a - m26a - m26_170511.mat <br>- mouse 2 session b - m26a - m26_170524.mat<br>- mouse 3 session a - aj42a - AJ042_190522.mat<br>- mouse 3 session b - aj42b - AJ042_190530.mat<br>- mouse 3 session c - aj42c - AJ042_190625.mat<br>- mouse 3 session d - aj42d - AJ042_190626.mat<br>- mouse 3 session e - aj42e - AJ042_190627.mat<br>- mouse 4 session a - aj43a - AJ043_190525.mat<br>- mouse 4 session b - aj43b - AJ043_190530.mat<br>- mouse 4 session c - aj43c - AJ043_190531.mat<br>- mouse 4 session d - aj43d - AJ043_190626.mat<br>- mouse 4 session e - aj43e - AJ043_190628.mat<br>- mouse 4 session f - aj43f - AJ043_190629.mat<br>- mouse 4 session g - aj43g - AJ043_190630.mat<br>- mouse 5 session a - aj60a - AJ060_190902.mat <br>- mouse 5 session b - aj60b - AJ060_190904.mat <br>- mouse 5 session c - aj60c - AJ060_190905.mat<br>- mouse 5 session d - aj60d - AJ060_190906.mat<br>- mouse 6 session a - aj61a - AJ061_190902.mat<br>- mouse 6 session b - aj61b - AJ061_190904.mat<br>- mouse 6 session c - aj61c - AJ061_190905.mat<br><br>Note: The additional ".mat" files with suffix "refIm" contain cell location information corresponding to the mean image across the entire experiment after motion correction, approximately 680um square in size.