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A comparison of computational methods for detecting bursts in neuronal spike trains and their application to human stem cell-derived neuronal networks.

Published version
Peer-reviewed

Repository DOI


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Authors

Charlesworth, Paul 
Thomas, Christopher W 
Paulsen, Ole 

Abstract

Accurate identification of bursting activity is an essential element in the characterization of neuronal network activity. Despite this, no one technique for identifying bursts in spike trains has been widely adopted. Instead, many methods have been developed for the analysis of bursting activity, often on an ad hoc basis. Here we provide an unbiased assessment of the effectiveness of eight of these methods at detecting bursts in a range of spike trains. We suggest a list of features that an ideal burst detection technique should possess and use synthetic data to assess each method in regard to these properties. We further employ each of the methods to reanalyze microelectrode array (MEA) recordings from mouse retinal ganglion cells and examine their coherence with bursts detected by a human observer. We show that several common burst detection techniques perform poorly at analyzing spike trains with a variety of properties. We identify four promising burst detection techniques, which are then applied to MEA recordings of networks of human induced pluripotent stem cell-derived neurons and used to describe the ontogeny of bursting activity in these networks over several months of development. We conclude that no current method can provide "perfect" burst detection results across a range of spike trains; however, two burst detection techniques, the MaxInterval and logISI methods, outperform compared with others. We provide recommendations for the robust analysis of bursting activity in experimental recordings using current techniques.

Description

Keywords

bursts, computational methods, development, spike trains, stem cells, Action Potentials, Animals, Cell Differentiation, Humans, Models, Neurological, Models, Statistical, Nerve Net, Neurons, Pluripotent Stem Cells

Journal Title

J Neurophysiol

Conference Name

Journal ISSN

0022-3077
1522-1598

Volume Title

116

Publisher

American Physiological Society
Sponsorship
Biotechnology and Biological Sciences Research Council (BB/H008608/1)
Wellcome Trust (093875/Z/10/Z)
Experimental data collection was supported by the BBSRC (PC, OP, grant number BB/H008608/1). EC was supported by a Wellcome Trust PhD Studentship and NIHR Cambridge Biomedical Research Centre Studentship. CWT was supported by a bursary from the Bridgwater Summer Undergraduate Research programme.