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@inproceedings{1076398,
author = {Van Goethem, Simon and Jacquet, JeanandMarie and Brim, Luboš and Šafránek, David},
address = {Neuveden},
booktitle = {Proceedings of the Third International Workshop on Interactions Between Computer Science and Biology (CS2Bio'12)},
doi = {http://dx.doi.org/10.1016/j.entcs.2013.02.019},
keywords = {timed automata; gene regulatory networks; UPPAAL},
howpublished = {elektronická verze "online"},
language = {eng},
location = {Neuveden},
pages = {67-81},
publisher = {Elsevier},
title = {Timed Modelling of Gene Networks with Arbitrary Expression Level Discretization},
url = {http://www.sciencedirect.com/science/article/pii/S1571066113000212},
year = {2013}
}
TY - JOUR
ID - 1076398
AU - Van Goethem, Simon - Jacquet, Jean-Marie - Brim, Luboš - Šafránek, David
PY - 2013
TI - Timed Modelling of Gene Networks with Arbitrary Expression Level Discretization
PB - Elsevier
CY - Neuveden
KW - timed automata
KW - gene regulatory networks
KW - UPPAAL
UR - http://www.sciencedirect.com/science/article/pii/S1571066113000212
L2 - http://www.sciencedirect.com/science/article/pii/S1571066113000212
N2 - In this paper, a novel approach to discrete modeling of gene regulatory networks is presented. The approach is based on timed automata and is new in: (i) reflecting discrete abstraction of gene expression with arbitrary granularity, (ii) combining boolean logic with approximation of Hill kinetics. This is achieved by introducing delays that change dynamically with respect to current activity levels of regulating genes. The approach is implemented in UPPAAL and evaluated on benchmark models and on a biological case study.
ER -
VAN GOETHEM, Simon, Jean-Marie JACQUET, Luboš BRIM a David ŠAFRÁNEK. Timed Modelling of Gene Networks with Arbitrary Expression Level Discretization. In \textit{Proceedings of the Third International Workshop on Interactions Between Computer Science and Biology (CS2Bio'12)}. Neuveden: Elsevier. s.~67-81. ISSN~1571-0661. doi:10.1016/j.entcs.2013.02.019. 2013.
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