Viswan et al. 2018¶
Model from the FindSim framework by Viswan et al. 2018. The model represents an epidermal growth factor (EGF)-dependent mitogen-activated protein kinase (MAPK) signaling pathway (the green block from [Fig. 7a]) which measures MAPK phosphorylation. Here, two simulation experiments with EGF step inputs of different sizes are used to perform parameter estimation on 29 model parameters corresponding to reactions involved in MAPK phosphorylation (see below). For this we used activated MAPK curves in [Fig. 7b and 7c].
Reactions chosen for parameter estimation and Global Sensitivity Analysis
GTP_Ras + craf_1_p <=> Raf_p_GTP_Ras
GEF_p -> inact_GEF
GTP_Ras -> GDP_Ras
GAP_p -> GAP
MAPK_p_p + craf_1_p <=> MAPK_p_p_feedback_cplx
MAPK_p_p_feedback_cplx -> MAPK_p_p + craf_1_p_p
MAPKK_p_p + MAPK <=> MAPKKtyr_cplx
MAPKKtyr_cplx -> MAPKK_p_p + MAPK_p
MAPKK_p_p + MAPK_p <=> MAPKKthr_cplx
MAPKKthr_cplx -> MAPKK_p_p + MAPK_p_p
MAPKK + Raf_p_GTP_Ras <=> Raf_p_GTP_Ras_1_cplx
Raf_p_GTP_Ras_1_cplx -> MAPKK_p + Raf_p_GTP_Ras
MAPKK_p + Raf_p_GTP_Ras <=> Raf_p_GTP_Ras_2_cplx
Raf_p_GTP_Ras_2_cplx -> MAPKK_p_p + Raf_p_GTP_Ras
inact_GEF + GDP_Ras <=> basal_GEF_activity_cplx
basal_GEF_activity_cplx -> inact_GEF + GTP_Ras
GEF_p + GDP_Ras <=> GEF_p_act_Ras_cplx
GEF_p_act_Ras_cplx -> GEF_p + GTP_Ras
GAP + GTP_Ras <=> GAP_inact_Ras_cplx
GAP_inact_Ras_cplx -> GAP + GDP_Ras
Model Repository
https://github.com/jpgsantos/Model_Viswan_2018