Biology subjects

Pier Luigi Dragotti

Publications and source records attributed to Pier Luigi Dragotti.

2 recordsLinked to original sources

bioRxiv2015

AN EXTENSION OF THE FRI FRAMEWORK FOR CALCIUM TRANSIENT DETECTION

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.\n\nIndex Terms-- Calcium imaging, Calcium transient detection, Finite rate of innovation, GCaMP6s

Neuroscience↗

bioRxiv2015

Spike Detection Using FRI Methods and Protein Calcium Sensors: Performance Analysis and Comparisons

Fast and accurate detection of action potentials from neurophysiological data is key to the study of information processing in the nervous system. Previous work has shown that finite rate of innovation (FRI) theory can be used to successfully reconstruct spike trains from noisy calcium imaging data. This is due to the fact that calcium imaging data can be modeled as streams of decaying exponentials which are a subclass of FRI signals. Recent progress in the development of genetically encoded calcium indicators (GECIs) has produced protein calcium sensors that exceed the sensitivity of the synthetic dyes traditionally used in calcium imaging experiments. In this paper, we compare the suitability for spike detection of the kinetics of a new family of GECIs (the GCaMP6 family) with the synthetic dye Oregon Green BAPTA-1. We demonstrate the high performance of the FRI algorithm on surrogate data for each calcium indicator and we calculate the Cramer-Rao lower bound on the uncertainty of the position of a detected spike in calcium imaging data for each calcium indicator.

Neuroscience↗