Localization of neurons from extracellular footprints

Abstract

Background:High density microelectrode arrays (HD-MEAs) are now widely used for both in-vitro and in-vivo recordings, as they allow spikes from hundreds of neurons to be recorded simultaneously. Since extracellular recordings do not allow visualization of the recorded neurons, algorithms are needed to estimate their physical positions, especially to track their movements when the are drifting away from recording devices. New Method:The objective of this study was to evaluate the performance of multiple algorithms for neuron localization solely from extracellular traces (MEA recordings), either artificial or obtained from mouse retina. The algorithms compared included center-of-mass, monopolar, and grid-based algorithms. The first method is a barycenter calculation. The second algorithm infers the position of the cell using triangulation with the assumption that the neuron behaves as a monopole. Finally, grid-based methods rely on comparing the recorded spike with a projection of spikes of hypothetical neurons with different positions. Results:The Grid-Based algorithm yielded the most satisfactory outcomes. The center-of-mass exhibited a minimal computational cost, yet its average localization was suboptimal. Monopolar algorithms gave cell localizations with an average error of less than 10μm, but they had considerable variability and a high computational cost. For the grid-based method, the variability was smaller, with satisfactory performance and low computational cost. Comparison with Existing Method(s):The accuracy of the different localization methods benchmarked in this article had not been properly tested with ground-truth recordings before. Conclusion:The objective of this article is to provide guidance to researchers on the selection of optimal methods for localizing neurons based on MEA recordings.