Imperial College London
Alternate

DrAmandaFoust

Faculty of Engineering, Department of Bioengineering

Senior Lecturer
 
 
 
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Contact

 

+44 (0)20 7594 1055a.foust Website CV

 
 
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Location

 

RSM 4.05Royal School of MinesSouth Kensington Campus

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Summary

 

Publications

Citation

BibTex format

@unpublished{Howe:2020:10.1101/2020.09.07.285585,
author = {Howe, CL and Quicke, P and Song, P and Jadan, HV and Dragotti, PL and Foust, AJ},
doi = {10.1101/2020.09.07.285585},
title = {Comparing synthetic refocusing to deconvolution for the extraction of neuronal calcium transients from light-fields},
url = {http://dx.doi.org/10.1101/2020.09.07.285585},
year = {2020}
}
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RIS format (EndNote, RefMan)

TY  - UNPB
AB  - <jats:title>Abstract</jats:title><jats:sec><jats:title>Significance</jats:title><jats:p>Light-field microscopy (LFM) enables fast, light-efficient, volumetric imaging of neuronal activity with calcium indicators. Calcium transients differ in temporal signal-to-noise ratio (tSNR) and spatial confinement when extracted from volumes reconstructed by different algorithms.</jats:p></jats:sec><jats:sec><jats:title>Aim</jats:title><jats:p>We evaluated the capabilities and limitations of two light-field reconstruction algorithms for calcium fluorescence imaging.</jats:p></jats:sec><jats:sec><jats:title>Approach</jats:title><jats:p>We acquired light-field image series from neurons either bulk-labeled or filled intracellularly with the red-emitting calcium dye CaSiR-1 in acute mouse brain slices. We compared the tSNR and spatial confinement of calcium signals extracted from volumes reconstructed with synthetic refocusing and Richardson-Lucy 3D deconvolution with and without total variation regularization.</jats:p></jats:sec><jats:sec><jats:title>Results</jats:title><jats:p>Both synthetic refocusing and Richardson-Lucy deconvolution resolved calcium signals from single cells and neuronal dendrites in three dimensions. Increasing deconvolution iteration number improved spatial confinement but reduced tSNR compared to synthetic refocusing. Volumetric light-field imaging did not decrease calcium signal tSNR compared to interleaved, widefield image series acquired in matched planes.</jats:p></jats:sec><jats:sec><jats:title>Conclusions</jats:title><jats:p>LFM enables high-volume rate, volumetric imaging of calcium transients in single cells (bulk-labeled), somata and dendrites (intracellular loaded). The trade-offs identified for tSNR, spatial confinement, and computational cost indicate which of syntheti
AU  - Howe,CL
AU  - Quicke,P
AU  - Song,P
AU  - Jadan,HV
AU  - Dragotti,PL
AU  - Foust,AJ
DO  - 10.1101/2020.09.07.285585
PY  - 2020///
TI  - Comparing synthetic refocusing to deconvolution for the extraction of neuronal calcium transients from light-fields
UR  - http://dx.doi.org/10.1101/2020.09.07.285585
ER  -
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