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Targeted Cortical Reorganization using Optogenetics in Non-human primates: Electrocorticography in Sensorimotor Cortex during Optogenetic Stimulation

Citation

Yazdan-Shahmorad, Azadeh*; Silversmith, Daniel B.*; Kharazia, Viktor; Sabes, Philip N. (2018), Targeted Cortical Reorganization using Optogenetics in Non-human primates: Electrocorticography in Sensorimotor Cortex during Optogenetic Stimulation, v14, UC San Francisco Dash, Dataset, https://doi.org/10.7272/Q61834NF

Abstract

The data consists of electrocorticography (ECoG) recordings over primary somatosensory and primary motor cortices in two rhesus macaques that expressed C1V1 optogenetic channels in pyramidal neurons. The experimental setup, including the optogenetic expression and simultaneous ECoG and laser stimulation, are detailed in (Yazdan-Shahmorad et al., 2016).

 

This dataset was collected during a series of ~1.5hr long experiments in which laser pulse trains were used to repeatedly stimulate one or two cortical sites. Each experiment was organized into blocks:

  1. Recording Blocks: Passive recordings were conducted during spontaneous activity (30 s or 5 min)

  2. Testing Blocks: 100 laser pulses were delivered with each laser, each in separate, interleaved blocks (10 pulses, 5ms @ 5 or 7Hz). ECoG signals were recorded simultaneously.

  3. Conditioning Blocks: Laser pulses were delivered through each laser (5ms pulses @ 5 or 7Hz) for 10min. The second laser had a fixed delay relative to the first laser and this delay varied across experiments. ECoG signals were recorded simultaneously.


A single experiment consisted of a pre-test period, with a Recording Block (RB) and a Testing Block (TB), followed by 5 repetitions of a Conditioning Block (CB), RB, and TB, for a total of 6 TB and RB and 5 CB:

{ RB TB - CB RB TB - CB RB TB - CB RB TB - CB RB TB - CB RB TB }

 

Reference:

YAZDAN-SHAHMORAD, A., DIAZ-BOTIA, C., HANSON, T. L., KHARAZIA, V., LEDOCHOWITSCH, P., MAHARBIZ, M. M. & SABES, P. N. 2016. A Large-Scale Interface for Optogenetic Stimulation and Recording in Nonhuman Primates. Neuron, 89, 927-39.

 

Usage Notes

table_of_experiments.xlsx contains some summary data for each experiment such as the number and timing of the lasers during the conditioning blocks.

 

Each experiment is self contained within a zip file: Monkey_YYYYMMDD_ Session#_PREAMP.zip

and each .zip file contains the following directories:

ConditioningBlocks/

CondBlock1.mat

CondBlock2.mat

CondBlock3.mat

CondBlock4.mat

CondBlock5.mat

RecordingBlocks/

RecBlock1.mat

RecBlock2.mat

RecBlock3.mat

RecBlock4.mat

RecBlock5.mat

RecBlock6.mat

TestingBlocks/

TestBlock1.mat

TestBlock2.mat

TestBlock3.mat

TestBlock4.mat

TestBlock5.mat

TestBlock6.mat

 

Each Conditioning Block .mat file contains the following variables:

  • lfp_ch# - broadband lfp signals for each channel #

  • hg_ch# - high gamma filtered lfp signals for each channel #

  • time - vector of time in seconds for each sample in lfp_ch# and hg_ch#

  • samp_freq - sampling frequency for lfp_ch# and hg_ch#

  • stim1 - onset times of laser 1 pulses

  • stim2 - onset times of laser 2 pulses

  • tstart - start time of conditioning block

  • tend - end time of conditioning block

 

Each Recording Block .mat file contains the following variables

  • lfp_ch# - broadband lfp signal for each channel #

  • time - vector of time in seconds for each sample in lfp_ch#

  • samp_freq - sampling frequency for lfp_ch#

  • tstart - start time of recording block

  • tend - end time of recording block

 

Each Testing Block .mat file contains the following variables

  • lfp_traces1_ch# - broadband lfp signal aligned to laser1 pulse onsets for each channel # [pulses x time]

  • mean_lfp_traces1_ch# - average broadband lfp signal aligned to laser1 pulse onsets for each channel # [pulses x time]

  • lfp_traces2_ch# - broadband lfp signal aligned to laser2 pulse onsets for each channel # [pulses x time]

  • mean_lfp_traces2_ch# - average broadband lfp signal aligned to laser2 pulse onsets for each channel # [pulses x time]

  • hg_traces1_ch# - high gamma filtered lfp signal aligned to laser1 pulse onsets for each channel # [pulses x time]

  • mean_hg_traces1_ch# - average high gamma filtered lfp signal aligned to laser1 pulse onsets for each channel # [pulses x time]

  • hg_traces2_ch# - high gamma filtered lfp signal aligned to laser2 pulse onsets for each channel # [pulses x time]

  • mean_hg_traces2_ch# - high gamma filtered lfp signal aligned to laser2 pulse onsets for each channel # [pulses x time]

  • samp_freq - sampling frequency for lfp_ch#

  • stim1 - onset times of laser 1 pulses

  • stim2 - onset times of laser 2 pulses

  • tstart - start time of recording block

  • tend - end time of recording block

  • win - window in seconds of data captured around the pulse onsets, ex. [1,1] represents a window that looks 1s back and 1s forward from the pulse onsets

Funding

Defense Advanced Research Projects Agency, Award: W911NF-14-2-0043

American Heart Association Postdoctoral Fellowship (AY),

National Science Foundation Graduate Research Fellowship (DBS),

References