TY - GEN
T1 - Input encoding proposal for behavioral experiments with a virtual C. Elegans representation
AU - Epelde, Gorka
AU - Mujika, Andoni
AU - Álvarez, Roberto
AU - Leškovský, Peter
AU - De Mauro, Alessandro
AU - Krewer, Finn
AU - Blau, Axel
N1 - Publisher Copyright:
Copyright © 2015 by SCITEPRESS - Science and Technology Publications, Lda. All rights reserved.
PY - 2015
Y1 - 2015
N2 - 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 other simulation solutions. It is being implemented and tested in the context of the Si elegans project.
AB - 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 other simulation solutions. It is being implemented and tested in the context of the Si elegans project.
KW - Behavioral experiment input encoding
KW - C
KW - Complex systems simulation
KW - Elegans
KW - In silico simulation
UR - http://www.scopus.com/inward/record.url?scp=84960433043&partnerID=8YFLogxK
U2 - 10.5220/0005701801150120
DO - 10.5220/0005701801150120
M3 - Conference Publication
AN - SCOPUS:84960433043
T3 - NEUROTECHNIX 2015 - Proceedings of the 3rd International Congress on Neurotechnology, Electronics and Informatics
SP - 115
EP - 120
BT - NEUROTECHNIX 2015 - Proceedings of the 3rd International Congress on Neurotechnology, Electronics and Informatics
A2 - Faisal, Aldo
A2 - Krebs, Hermano Igo
A2 - Pedotti, Antonio
PB - SCITEPRESS
T2 - 3rd International Congress on Neurotechnology, Electronics and Informatics, NEUROTECHNIX 2015
Y2 - 16 November 2015 through 17 November 2015
ER -