Table 2.
Parameter values and initial conditions
| A. Basal parameter values for the wild-type cell cycle | |||||||
|---|---|---|---|---|---|---|---|
| kg = 0.007702 |  |
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kd,n2 = 0.12 |  |
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| kd,b2p = 0.15 |  |
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kd1,c1 = 0.01 | kd2,c1 = 1 | kd3,c1 = 1 | ||
| kpp,c1 = 4 |  |
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kd1,f6 = 0.01 | kd2,f6 = 1 | ||
| kd3,f6 = 1 | kpp,f6 = 4 | kas,b5 = 50 | kdi,b5 = 0.06 | kas,f5 = 0.01 | kdi,f5 = 0.01 | ||
| kas,b2 = 50 | kdi,b2 = 0.05 | kas,f2 = 15 | kdi,f2 = 0.5 |  |
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| kd,swi = 0.08 | ka,swi = 2 | ki,swi = 0.05 | ka,apc = 0.1 | ki,apc = 0.15 |  |
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kd,20 = 0.3 |  |
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ks,cdh = 0.01 | kd,cdh = 0.01 | ||
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ks,14 = 0.2 | kd,14 = 0.1 | ||
| ks,net = 0.084 | kd,net = 0.03 |  |
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ki,15 = 0.5 | ||
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kas,rent = 200 | kas,rentp = 1 | ||
| kdi,rent = 1 | kdi,rentp = 2 | ks,ppx = 0.1 |  |
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kas,esp = 50 | ||
| kdi,esp = 0.5 | ks,ori = 2 | kd,ori = 0.06 | ks,bud = 0.2 | kd,bud = 0.06 | ks,spn = 0.1 | ||
| kd,spn = 0.06 | ka,sbf = 0.38 |  |
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ka,mcm = 1 | ki,mcm = 0.15 | ||
| kmad2 = 8 (for [ORI] > 1 and [SPN] < 1) or 0.01 (otherwise) | |||||||
| kbub2 = 1 (for [ORI] > 1 and [SPN] < 1) or 0.2 (otherwise) | |||||||
| klte1 = 1 (for [SPN] > 1 and [Clb2] > Kez) or 0.1 (otherwise) | |||||||
| εsbf,n2 = 2 | εsbf,n3 = 10 | εsbf,b5 = 2 | εc1,n3 = 0.3 | εc1,n2 = 0.06 | εc1,k2 = 0.03 | ||
| εc1,b5 = 0.1 | εc1,b2 = 0.45 | εf6,n3 = 0.3 | εf6,n2 = 0.06 | εf6,k2 = 0.03 | εf6,b5 = 0.1 | ||
| εf6,b2 = 0.55 | εcdh,n3 = 0.25 | εcdh,n2 = 0.4 | εcdh,b5 = 8 | εcdh,b2 = 1.2 | εori,b5 = 0.9 | ||
| εori,b2 = 0.45 | εbud,n3 = 0.05 | εbud,n2 = 0.25 | εbud,b5 = 1 | C0 = 0.4 | Dn3 = 1 | ||
| B0 = 0.054 | [TEM1]T = 1 | [Cdc15]T = 1 | [Esp1]T = 1 | ||||
| Jd2,c1 = 0.05 | Jd2,f6 = 0.05 | Ja,apc = 0.1 | Ji,apc = 0.1 | Ja,cdh = 0.03 | Ji,cdh = 0.03 | ||
| Ja,tem = 0.1 | Ji,tem = 0.1 | Ja,sbf = 0.01 | Ji,sbf = 0.01 | Ja,mcm = 0.1 | Ji,mcm = 0.1 | ||
| Jspn = 0.14 | Jn3 = 6 | J20,ppx = 0.15 | Jpds = 0.04 | Kez = 0.3 | Kez2 = 0.2 | ||
| B. Initial conditions for a newborn, wild-type daughter cell | ||
|---|---|---|
| [mass] = 1.2060 | [F5] =7.2e-5 | [Cdc14] =0.4683 |
| [Cln2] =0.0652 | [F2P] =0.0274 | [Net1]T =2.8 |
| [Clb5] =0.0518 | [F5P] =7.9e-6 | [Net1] =0.0186 |
| [Clb2] =0.1469 | [Swi5]T =0.9765 | [RENT] =1.0495 |
| [Sic1] =0.0229 | [Swi5] =0.9562 | [PPX] =0.1232 |
| [Sic1P] =0.0064 | [APC-P] =0.1015 | [Pds1] =0.0256 |
| [C2] =0.2384 | [Cdc20]T =1.9163 | [Esp1] =0.3013 |
| [C5] =0.0701 | [Cdc20]A =0.4443 | [ORI] =0.0009 |
| [C2P] =0.0240 | [Cdh1]T =1 | [BUD] =0.0085 |
| [C5P] =0.0069 | [Cdh1] =0.9305 | [SPN] =0.0305 |
| [Cdc6] =0.1076 | [Tem1] =0.9039 | kmad2 =0.01 |
| [Cdc6P] =0.0155 | [Cdc15] =0.6565 | kbub2 =0.2 |
| [F2] =0.2361 | [Cdc14]T =2 | klte1 =0.1 |
All parameters that start with a lower case k are rate constants (min-1). All other parameters are dimensionless