PARAMETERS
ESTIMATION METHODS
We used two different approaches for parameter estimation from experimental data
MEIGO
INSIGHT
Parameter constant for the NO module
Name | Description | Unit | range values | value Estimation | method of Evaluation | Source |
---|---|---|---|---|---|---|
knor_no | NorR NOproduction rate | nM-1min-1 | 0.001 - 10 | 0,0011183 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
k_nor_no | NorR NOdissociation rate | nM-1min-1 | 0.01 - 10 | 0,0363665 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
knorV1 | DNorR NO2binding rate | nM-1min-1 | 0.01 - 1 | 0,0014788 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
k_norV1 | DNorR NO2unbinding rate | nM-1min-1 | 0.01 - 1 | 0,00081 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
knorV2 | DNorR NO2binding rate | nM-1min-1 | 0.01 - 10 | 0,00185016 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
k_norV2 | DNorR NO2unbinding rate | nM-1min-1 | 0.01 - 1 | 7.1 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
knorV3 | DNorR NO2binding rate | nM-1min-1 | 0.01 - 10 | 0,986026 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
k_norV3 | DNorR NO2unbinding rate | nM-1min-1 | 0.01 - 10 | 6.1 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
knorprod | NorR constitutive production rate | nM-1min-1 | 0.01 - 10 | 0,958777 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
dnor | NorR degradation rate | nM-1min-1 | 0.01 - 1 | 89,159 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
dnor_no | NorR NOdegradation rate | nM-1min-1 | 0.01 - 1 | 46,678 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
kdnor | DNorR dimerization constant | nM-1min-1 | 0.01 - 1 | 75698,5 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
k_dnor | DNorR dissociation rate | nM-1min-1 | 0.01 - 1 | 1,91699 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
kmrna | mRNA production rate for pnorV promoter | nM-1min-1 | 0.01 - 1 | 3438,47 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
dmrna | mRNA degradation rate | min-1 | 0.01 - 1 | 0,0199458 | MEIGO metaheuristic evaluation from plate reader | Computed from parameter estimation |
Parameter constant for the AHL module
Name | Description | Unit | range values | value Estimation | method of Evaluation | Source |
---|---|---|---|---|---|---|
kesarProd | EsaR constitutive production rate | nM-1min-1 | 0.01 - 10 | 3,24412 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
desar | DEsaR degradation rate | min-1 | 0.01 - 1 | 0,0152529 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
kl | promoter leakiness | nM-1min-1 | 0.01 - 10 | 0,00242729 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
k5 | DEsaR production rate | nM-1min-1 | 0.01 - 1 | 0,01 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
k_5 | DEsaR dissociation rate | nM-1min-1 | 0.01 - 10 | 0,65492 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
k6 | DEsaR AHL production rate | nM-1min-1 | 0.01 - 10 | 0,0100102 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
k_6 | DEsaR AHL dissociation rate | nM-1min-1 | 0.01 - 10 | 0,719465 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
k7 | AHL to Pesar promoter binding rate | nM-1min-1 | 0.01 - 1 | 0,4878 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
k_7 | AHL to Pesar promoter unbinding rate | nM-1min-1 | 0.01 - 1 | 0,0383841 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
kmrna | mRNA production rate for Pconst+esaboxes promoter | nM-1min-1 | 0.01 - 1 | 0,0121775 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
dmrna | mRNA degradation rate | min-1 | 0.01 - 1 | 0,0142082 | MEIGO metaheuristic evaluation from FACS Datas | Computed from parameter estimation |
Parameter constant for the AHL module
Name | Description | Unit | range values | value Estimation | method of Evaluation | Source |
---|---|---|---|---|---|---|
klac_pyr | NorR NOproduction rate | nM-1min-1 | 0.01 - 10 | 0.1 | Litterature | Source |
k_lac_pyr | NorR NOdissociation rate | nM-1min-1 | 0.01 - 10 | 1.5 | Litterature | Source |
kdlldr | DNorR NO2binding rate | nM-1min-1 | 0.01 - 1 | 0.1 | Litterature | Source |
k_dlldr | DNorR NO2unbinding rate | nM-1min-1 | 0.01 - 1 | 8.1 | Litterature | Source |
kgoff | DNorR NO2binding rate | nM-1min-1 | 0.01 - 10 | 0.1 | Litterature | Source |
k_goff | DNorR NO2unbinding rate | nM-1min-1 | 0.01 - 1 | 7.1 | Litterature | Source |
kdlldr_lac | DNorR NO2binding rate | nM-1min-1 | 0.01 - 10 | 0.1 | Litterature | Source |
k_dlldr_lac | DNorR NO2unbinding rate | nM-1min-1 | 0.01 - 10 | 6.1 | Litterature | Source |
kgoff_lac | NorR constitutive production rate | nM-1min-1 | 0.01 - 10 | 3 | Litterature | Source |
k_goff_lac | NorR degradation rate | nM-1min-1 | 0.01 - 1 | 0.1 | Litterature | Source |
dlld | NorR NOdegradation rate | nM-1min-1 | 0.01 - 1 | 1 | Litterature | Source |
kllddProd | DNorR dimerization constant | nM-1min-1 | 0.01 - 1 | 1 | Litterature | Source |
klldrProd | DNorR dissociation rate | nM-1min-1 | 0.01 - 1 | 10 | Litterature | Source |
kl | DEsaR production rate | nM-1min-1 | 0.01 - 10 | 1.5 | Litterature | Source |
nlact | DNorR NO2binding rate | nM-1min-1 | 0.01 - 1 | 0.1 | Litterature | Source |
Klact | DEsaR degradation rate | nM-1min-1 | 0.01 - 1 | 8.1 | Litterature | Source |