FM-Sim: A Hybrid Protocol Simulator of Fluorescence Microscopy Neuroscience Assays with Integrated Bayesian Inference

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

We present FM-Sim, a domain-specific simulator for defining and simulating fluorescence microscopy assays. Experimental protocols as performed in vitro may be defined in the simulator. The defined protocols then interact with a computational model of presynaptic behaviour in rodent central nervous system neurons, allowing simulation of fluorescent responses to varying stimuli. Rate parameters of the model may be obtained using Bayesian inference functions integrated into the simulator, given experimental fluorescence observations of the protocol performed in vitro as training data. These trained protocols allow for predictive in silico modelling of potential experimental outcomes prior to time-consuming and expensive in vitro studies.
Original languageEnglish
Title of host publicationComputational Methods in Systems Biology
Subtitle of host publication12th International Conference, CMSB 2014, Manchester, UK, November 17-19, 2014, Proceedings
PublisherSpringer International Publishing
Pages248-251
Number of pages4
ISBN (Electronic)978-3-319-12982-2
ISBN (Print)978-3-319-12981-5
DOIs
Publication statusPublished - 2014
EventThird International Workshop on Hybrid Systems Biology - Vienna, Austria
Duration: 23 Jul 201424 Jul 2014

Publication series

NameLecture Notes in Computer Science
Volume8859
ISSN (Print)0302-9743

Workshop

WorkshopThird International Workshop on Hybrid Systems Biology
CountryAustria
CityVienna
Period23/07/1424/07/14

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