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Mattia Chini ef6fc384b0 datacite 1 year ago
LFP raw signals 32405bdc7a 7th commit 2 years ago
SUA info fa588f1a2f 2nd commit 2 years ago
LICENSE 736d16ff23 Initial commit 2 years ago
README.md e0e1361b3c typo 1 year ago
Recording Metadata.xlsx 93297eda44 metadata 1 year ago
datacite.yml ef6fc384b0 datacite 1 year ago

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 as 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.

datacite.yml
Title Not-anesthetized ephys data associated with the paper *Resolving and rescuing developmental miswiring in a mouse model of cognitive impairment*
Authors Chini,Mattia;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany;http://orcid.org/0000-0002-5782-9720
Pöpplau,Jastyn A.;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Lindemann,Christoph;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Carol-Perdiguer,Laura;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Hnida,Marilena;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Oberländer,Victoria;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Xu,Xiaxia;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Ahlbeck,Joachim;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Bitzenhofer,Sebastian H.;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany Center for Neural Circuits and Behavior, Department of Neurosciences, University of California, San Diego, La Jolla, CA, USA
Mulert,Christoph;Psychiatry Neuroimaging Branch (PNB), Department of Psychiatry and Psychotherapy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany Clinic for Psychiatry and Psychotherapy, University Medical Center Giessen, Giessen
Hanganu-Opatz,Ileana L.;Developmental Neurophysiology, Institute of Neuroanatomy, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
Description Electrophysiological recordings from prefrontal cortex of 60 not-anesthetized postnatal day 4-10 mice: - 13 P4-6 control mice - 13 P4-6 dual-hit GE mice - 16 P8-10 control mice - 18 P8-10 dual-hit GE mice
License Creative Commons CC0 1.0 Public Domain Dedication (https://creativecommons.org/publicdomain/zero/1.0/)
References Resolving and rescuing developmental miswiring in a mouse model of cognitive impairment [] (IsPartOf)
Funding EU, ERC-2015-CoG 681577
DFG, Ha 4466/10-1
DFG, SFB 936 B5
DFG, SPP 1665
Keywords Neuroscience
Electrophysiology
Cognitive impairment
Neonatal Mice
Prefrontal cortex
Neurodevelopment
Mental disorders
LFP
SUA
Resource Type Dataset