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dc.contributor.authorGelfman, Sahar
dc.contributor.authorWang, Quanli
dc.contributor.authorLu, Yi-Fan
dc.contributor.authorHall, Diana
dc.contributor.authorBostick, Christopher D
dc.contributor.authorDhindsa, Ryan
dc.contributor.authorHalvorsen, Matt
dc.contributor.authorMcSweeney, K Melodi
dc.contributor.authorCotterill, Ellese
dc.contributor.authorEdinburgh, Tom
dc.contributor.authorBeaumont, Michael A
dc.contributor.authorFrankel, Wayne N
dc.contributor.authorPetrovski, Slavé
dc.contributor.authorAllen, Andrew S
dc.contributor.authorBoland, Michael J
dc.contributor.authorGoldstein, David B
dc.contributor.authorEglen, Stephen
dc.date.accessioned2018-11-17T00:31:54Z
dc.date.available2018-11-17T00:31:54Z
dc.date.issued2018-10
dc.identifier.issn1553-734X
dc.identifier.urihttps://www.repository.cam.ac.uk/handle/1810/285385
dc.description.abstractHere we present an open-source R package 'meaRtools' that provides a platform for analyzing neuronal networks recorded on Microelectrode Arrays (MEAs). Cultured neuronal networks monitored with MEAs are now being widely used to characterize in vitro models of neurological disorders and to evaluate pharmaceutical compounds. meaRtools provides core algorithms for MEA spike train analysis, feature extraction, statistical analysis and plotting of multiple MEA recordings with multiple genotypes and treatments. meaRtools functionality covers novel solutions for spike train analysis, including algorithms to assess electrode cross-correlation using the spike train tiling coefficient (STTC), mutual information, synchronized bursts and entropy within cultured wells. Also integrated is a solution to account for bursts variability originating from mixed-cell neuronal cultures. The package provides a statistical platform built specifically for MEA data that can combine multiple MEA recordings and compare extracted features between different genetic models or treatments. We demonstrate the utilization of meaRtools to successfully identify epilepsy-like phenotypes in neuronal networks from Celf4 knockout mice. The package is freely available under the GPL license (GPL> = 3) and is updated frequently on the CRAN web-server repository. The package, along with full documentation can be downloaded from: https://cran.r-project.org/web/packages/meaRtools/.
dc.description.sponsorshipWellcome Trust (+ other USA sources)
dc.format.mediumElectronic-eCollection
dc.languageeng
dc.publisherPublic Library of Science (PLoS)
dc.rightsAttribution 4.0 International
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectNeurons
dc.subjectCells, Cultured
dc.subjectAnimals
dc.subjectMice, Knockout
dc.subjectMice
dc.subjectMicroelectrodes
dc.subjectComputational Biology
dc.subjectElectrophysiology
dc.subjectAction Potentials
dc.subjectAlgorithms
dc.subjectSoftware
dc.titlemeaRtools: An R package for the analysis of neuronal networks recorded on microelectrode arrays.
dc.typeArticle
prism.issueIdentifier10
prism.publicationDate2018
prism.publicationNamePLoS Comput Biol
prism.startingPagee1006506
prism.volume14
dc.identifier.doi10.17863/CAM.32751
dcterms.dateAccepted2018-09-12
rioxxterms.versionofrecord10.1371/journal.pcbi.1006506
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserved
rioxxterms.licenseref.startdate2018-10
dc.contributor.orcidGelfman, Sahar [0000-0002-4727-7862]
dc.contributor.orcidHall, Diana [0000-0001-5462-4407]
dc.contributor.orcidDhindsa, Ryan [0000-0002-8965-0813]
dc.contributor.orcidHalvorsen, Matt [0000-0002-6707-2418]
dc.contributor.orcidCotterill, Ellese [0000-0003-4760-9748]
dc.contributor.orcidEdinburgh, Tom [0000-0002-3599-7133]
dc.contributor.orcidPetrovski, Slavé [0000-0002-1527-961X]
dc.contributor.orcidEglen, Stephen [0000-0001-8607-8025]
dc.identifier.eissn1553-7358
rioxxterms.typeJournal Article/Review
cam.issuedOnline2018-10-01


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Attribution 4.0 International
Except where otherwise noted, this item's licence is described as Attribution 4.0 International