# FLT3 for rtkf_name in ['FL']: add_monomer_synth_deg(rtkf_name) rtk_cascade = [ ('FLT3', {'Y843': ['FL']}), ] generate_pathway(model, rtk_cascade) # ERK for ras_name in ['HRAS', 'KRAS', 'NRAS']: add_monomer_synth_deg(ras_name, nsites=['N']) add_activation( model, ras_name, 'N', 'nucleotide_exchange', ['FLT3__Y843_p'] ) mapk_cascade = [ ('RAF1', {'S338': ['KRAS__N_gtp', 'HRAS__N_gtp', 'NRAS__N_gtp']}), ('BRAF', {'S447': ['KRAS__N_gtp', 'HRAS__N_gtp', 'NRAS__N_gtp']}), ('MAP2K1', {'S218_S222': ['RAF1__S338_p', 'BRAF__S447_p']}), ('MAP2K2', {'S222_S226': ['RAF1__S338_p', 'BRAF__S447_p']}), ('MAPK1', {'T185_Y187': ['MAP2K1__S218_p__S222_p', 'MAP2K2__S222_p__S226_p']}), ('MAPK3', {'T202_Y204': ['MAP2K1__S218_p__S222_p', 'MAP2K2__S222_p__S226_p']}), ] generate_pathway(model, mapk_cascade) add_abundance_observables(model)
('EGFR', { 'Y1173': ['EGF'] }), ('ERBB2', { 'Y1248': ['EGF'] }), ] generate_pathway(model, erbb_cascade) active_rtks = ['EGFR__Y1173_p', 'ERBB2__Y1248_p'] stat_rtks = ['EGFR__Y1173_p', 'ERBB2__Y1248_p'] # MAPK for ras_name in ['HRAS', 'KRAS', 'NRAS']: add_monomer_synth_deg(ras_name, nsites=['N']) add_activation(model, ras_name, 'N', 'nucleotide_exchange', active_rtks) mapk_cascade = [ ('RAF1', { 'S338': ['KRAS__N_gtp', 'HRAS__N_gtp', 'NRAS__N_gtp'] }), ('BRAF', { 'S445': ['KRAS__N_gtp', 'HRAS__N_gtp', 'NRAS__N_gtp'] }), ('ARAF', { 'S299': ['KRAS__N_gtp', 'HRAS__N_gtp', 'NRAS__N_gtp'] }), ('MAP2K1', { 'S218_S222': ['RAF1__S338_p', 'BRAF__S445_p', 'ARAF__S299_p'] }), ('MAP2K2', {