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Authors: Gorka Epelde 1 ; Andoni Mujika 1 ; Roberto Alvarez 1 ; Peter Leškovský 1 ; Alessandro de Mauro 1 ; Finn Krewer 2 and Axel Blau 3

Affiliations: 1 Vicomtech-IK4, Spain ; 2 National University of Ireland Galway, Ireland ; 3 Fondazione Istituto Italiano di Tecnologia, Italy

Keyword(s): Behavioral Experiment Input Encoding, C. elegans, Complex Systems Simulation, In-silico Simulation.

Abstract: This paper discusses a Caenorhabditis elegans (C. elegans) nematode behavioral experiment input encoding. It proposes a common digital representation for behavioral studies with C. elegans. This work is a step forward towards the reproducibility and comparability of in silico simulations of the nematode with real-world experiments. The digital representation is divided into environmental and experimental configurations. The behavioral input is structured by duration-based behavioral experiment types at the top level (i.e. interaction at a specific time, interaction from t0 – t1 and overall duration) and by interaction type (i.e. mechanotaxis, chemotaxis, thermotaxis, galvanotaxis and phototaxis) for each duration-based type. The environment configuration is composed of the identification of the worm’s mutation type, worm crowding, initial location, configuration of the assay plate, and obstacle settings. Parameters are defined by an XML schema to ensure the interoperability with othe r simulation solutions. It is being implemented and tested in the context of the Si elegans project (More)

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Paper citation in several formats:
Epelde, G.; Mujika, A.; Alvarez, R.; Leškovský, P.; de Mauro, A.; Krewer, F. and Blau, A. (2015). Input Encoding Proposal for Behavioral Experiments with a Virtual C. elegans Representation. In Proceedings of the 3rd International Congress on Neurotechnology, Electronics and Informatics (NEUROTECHNIX 2015) - NeBICA; ISBN 978-989-758-161-8, SciTePress, pages 115-120. DOI: 10.5220/0005701801150120

@conference{nebica15,
author={Gorka Epelde. and Andoni Mujika. and Roberto Alvarez. and Peter Leškovský. and Alessandro {de Mauro}. and Finn Krewer. and Axel Blau.},
title={Input Encoding Proposal for Behavioral Experiments with a Virtual C. elegans Representation},
booktitle={Proceedings of the 3rd International Congress on Neurotechnology, Electronics and Informatics (NEUROTECHNIX 2015) - NeBICA},
year={2015},
pages={115-120},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0005701801150120},
isbn={978-989-758-161-8},
}

TY - CONF

JO - Proceedings of the 3rd International Congress on Neurotechnology, Electronics and Informatics (NEUROTECHNIX 2015) - NeBICA
TI - Input Encoding Proposal for Behavioral Experiments with a Virtual C. elegans Representation
SN - 978-989-758-161-8
AU - Epelde, G.
AU - Mujika, A.
AU - Alvarez, R.
AU - Leškovský, P.
AU - de Mauro, A.
AU - Krewer, F.
AU - Blau, A.
PY - 2015
SP - 115
EP - 120
DO - 10.5220/0005701801150120
PB - SciTePress

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