Resolving_and_rescuing_developmental_miswiring_in_a_mouse_model_of_cognitive_impairment/README.md

Resolving and rescuing developmental miswiring in a mouse model of cognitive impairment

This repository contains the ephys data related to the article "Resolving and rescuing developmental miswiring in a mouse model of cognitive impairment". We provide in vivo recordings (LFP and SUA data) from the prefrontal cortex of 60 not-anesthetized mice of 4 to 10 days of age. Following the structure of the article, the dataset contains recordings of:

• 13 P4-6 control mice
• 13 P4-6 dual-hit GE mice
• 16 P8-10 control mice
• 18 P8-10 dual-hit GE mice
  

LFP raw signals:

This folder contains .dat files with the LFP raw traces of the 60 recordings.

Electrode channels:

• All recordings contain 16 channels recorded with a Neuronexus 4x4 4-shank electrode. Neighboring channels on the same shank are 100 micrometers apart. Channels at the same depth and on neighboring shanks are 125 micrometers apart.
• Channels 1 to 4 are the most medial ones and channels 13 to 16 the most lateral.
• The probe spans from layer II to layer V/VI of the prelimbic section of the prefrontal cortex.
• Channels 1-5-9-13 are the most superficial (closer to brain surface), and 4-8-12-16 the deepest.
• The position of every electrode has been post-mortem histologycally reconstructed and the column "shift" in Recording Metadata.xlsx indicates the optimal shift (in shanks) to realign the channels. A positive shift indicates that the channel was too inserted too medially (e.g. shift = 1 -> channels 5:8 correspond to channels 1:4 of an optimally inserted electrode), whereas a negative shift indicates a lateral insertion (e.g. shift = -2 -> channels 1:4 correspond to channels 9:12 of an optimally inserted electrode).
  

Signal:

• The signal is in int16 format, with a sampling frequency of 1000 Hz.
• Signal has been common average rereferenced (the median of all channels has been subtracted).
• Most recordings are ~ 1h 30' of uniterrupted recording. All recordings are at least 50' long.
• Data is in a single vector form. The first sixteen data points correspond to the first datapoint (millisecond) of recording for all the sixteen channels (from channel 1 to 16). The second sixteen data points to the second datapoint and so on.

SUA info:

This folder contains information about 1778 manually sorted single units from the recordings. Spike sorting has been done using klusta (https://klusta.readthedocs.io/en/latest/), and manually curated with Phy (https://phy.readthedocs.io/en/latest/).

• For every recording, a MATLAB structure with the following info for every unit is provided:
• channel: the channel on which the unit has been detected
• Timestamps: timestamps (in ms) of detected action potential
• Waveform: the average waveform of the unit
• Amplitudes: the amplitude of all the detected action potentials
• file: the LFP file it is referred to

For every question and/or further data request, please don't hesitate in contacting me.