An extension of the FRI framework for calcium transient detection

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Title: An extension of the FRI framework for calcium transient detection
Author(s): Reynolds, S
Copeland, CS
Schultz, SR
Dragotti, PL
Item Type: Conference Paper
Abstract: Two-photon calcium imaging of the brain allows the spatiotemporal activity of neuronal networks to be monitored at cellular resolution. In order to analyse this activity it must first be possible to detect, with high temporal resolution, spikes from the time series corresponding to single neurons. Previous work has shown that finite rate of innovation (FRI) theory can be used to reconstruct spike trains from noisy calcium imaging data. In this paper we extend the FRI framework for spike detection from calcium imaging data to encompass data generated by a larger class of calcium indicators, including the genetically encoded indicator GCaMP6s. Furthermore, we implement least squares model-order estimation and perform a noise reduction procedure ('pre-whitening') in order to increase the robustness of the algorithm. We demonstrate high spike detection performance on real data generated by GCaMP6s, detecting 90% of electrophysiologically-validated spikes.
Publication Date: 16-Jun-2016
Date of Acceptance: 13-Apr-2016
ISBN: 978-1-4799-2350-2
ISSN: 1945-7928
Publisher: IEEE
Start Page: 676
End Page: 679
Journal / Book Title: 2016 IEEE 13th International Symposium on Biomedical Imaging (ISBI)
Copyright Statement: © 2016 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes, creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.
Sponsor/Funder: The Royal Society
Biotechnology and Biological Sciences Research Council (BBSRC)
National Institutes of Health
Funder's Grant Number: IF110059
UPMC: C15/0244
Conference Name: IEEE 13th International Symposium on Biomedical Imaging (ISBI)
Keywords: Science & Technology
Life Sciences & Biomedicine
Engineering, Biomedical
Radiology, Nuclear Medicine & Medical Imaging
Calcium imaging
Calcium transient detection
Finite rate of innovation
Publication Status: Published
Start Date: 2016-04-13
Finish Date: 2016-04-16
Conference Place: Prague, Czech Republic
Appears in Collections:Faculty of Engineering
Electrical and Electronic Engineering

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