DATA ANALYSIS

DATA ANALYTICS TOOLS FOR MEA DATA

Introduction

The electrophysiology core facility (ePHYS) has developed a data analytics tools for fast, automated, and flexible analysis of large neuronal data set generated with the Alpha MED Scientific system.

The ToolBox is a library of R functions designed for spike analysis.

Workflow

Spikes are extracted using Mobius software (Alpha MED Scientific) which produces data files in CSV format that are loaded and supported by the R functions.

An analytical guideline is created allowing the analysis of several recordings at the same time and customized analysis.

Outputs

Visualization of spike waveform

Temporal and spatial visualization of spike activity (raster plot and heat map)

Number of active electrodes and mean firing rate (MFR) are extracted for each condition as specified in the analytical guideline. The firing rate for all electrodes is also displayed.

Highlights

The temporal balance between self-renewal and differentiation of human neural stem cells requires the amyloid precursor protein. Shabani K, Pigeon J, Benaissa Touil Zariouh M, Liu T, Saffarian A, Komatsu J, Liu E, Danda N, Becmeur-Lefebvre M, Limame R, Bohl D, Parras C, Hassan BA. Sci Adv. 2023 16;9(24).

Source code

The source code is freely available under gitlab https://gitlab.com/icm-institute/dac/biostats/MEASpikeR

The toolbox was presented as a poster at the FENS meeting in Paris in July 2022.

Collaboration

The toolbox is developed by Francois-Xavier LEJEUNE (DAC).