TY - GEN
T1 - Neutral space analysis of gene regulatory network models of salt stress response in Arabidopsis using evolutionary computation
AU - Ruz, Gonzalo A.
AU - Timmermann, Tania
AU - Goles, Eric
N1 - Publisher Copyright:
© 2016 IEEE.
PY - 2016/11/14
Y1 - 2016/11/14
N2 - Boolean networks are popular models to represent gene regulatory networks due to their simplicity and capacity to give an initial idea of the qualitative dynamics of a gene regulatory network represented by the temporal evolution of the protein states. In this paper, we analyze the neutral space of Boolean network models of salt stress response in Arabidopsis through the construction of neutral networks. To infer Boolean networks to build the neutral network, we use an evolution strategy that uses a wildtype network to generate initial candidate solutions. We compare the neutral space results when we consider two different wildtypes. Our results show the effectiveness and usefulness of the evolutionary computation approach for this problem, as well as findings related to how the neutral space is shaped depending of the initial wildtype employed as well as particular characteristics of the evolution strategy used in this work.
AB - Boolean networks are popular models to represent gene regulatory networks due to their simplicity and capacity to give an initial idea of the qualitative dynamics of a gene regulatory network represented by the temporal evolution of the protein states. In this paper, we analyze the neutral space of Boolean network models of salt stress response in Arabidopsis through the construction of neutral networks. To infer Boolean networks to build the neutral network, we use an evolution strategy that uses a wildtype network to generate initial candidate solutions. We compare the neutral space results when we consider two different wildtypes. Our results show the effectiveness and usefulness of the evolutionary computation approach for this problem, as well as findings related to how the neutral space is shaped depending of the initial wildtype employed as well as particular characteristics of the evolution strategy used in this work.
UR - http://www.scopus.com/inward/record.url?scp=85008264060&partnerID=8YFLogxK
U2 - 10.1109/CEC.2016.7744334
DO - 10.1109/CEC.2016.7744334
M3 - Conference contribution
AN - SCOPUS:85008264060
T3 - 2016 IEEE Congress on Evolutionary Computation, CEC 2016
SP - 4281
EP - 4288
BT - 2016 IEEE Congress on Evolutionary Computation, CEC 2016
PB - Institute of Electrical and Electronics Engineers Inc.
T2 - 2016 IEEE Congress on Evolutionary Computation, CEC 2016
Y2 - 24 July 2016 through 29 July 2016
ER -