Work Package: WP5
Deliverable: 13.1: Implementation of novel scan algorithm in MATLAB and simulation of microscope
Deliverable due date: month 24
This document reports on the progress of work on Deliverable 13.1. All the planned tasks related to this deliverable have been accomplished. Obtained results have been submitted to “IEEE EMBC” peer-reviewed conference paper in Mai 2014 and published in August 2014 under the Open Access policy, which makes it accessible with no restrictions under the following link: http://www.ncbi.nlm.nih.gov/pubmed/25570582
This publication is a scientific part of the Deliverable 13.1 and this “Project Deliverable Report” document focuses on its relation to the NETT proposal.
Due to the delay between grant submission and the start of NETT, P13 as originally described had already been substantially achieved by a PhD student funded from another source. ESR12, therefore, is working on the implementation of a system for optimal sequential cellular recording in an inertial laser scanning microscope, which complements and synergizes with the other projects.
We developed a new two dimensional scanning algorithm that modulates the amplitude of the sinusoidal current applied to both Galvanometric Scanners in order to produce circular motions resulting in the best fit of spiral trajectories through a random population of neurons. In the entire framework of our MATLAB simulation, we also provide surrogate data for a neural network based and the Izhikevich model so that the dynamics of every kind of cell from the mammalian cortex can be simulated. Our model then translates this modular neural activity into fluorescent pattern using the kinetic of the fluorescent protein GCaMP6f. Finally, to have a proof of concept that our new developed algorithm works, we created a basic simulation of signal acquisition which shows that calcium transients are well transcribed.
This describes the accomplishment of Deliverable 13.1 “Implementation of novel scan algorithm in MATLAB and simulation of microscope “. The remaining part of P13, which is “LabVIEW implementation of Control algorithm on scope hardware” and “Use of system to collect dataset with high cell count for characterization of neural population code” will be reported in Deliverable 13.2 and Deliverable 13.3 respectively.
Contributors: Renaud Schuck, Luca Annecchino, Simon Schultz (Imperial)