Marko Vendelin

markov pushed to steady-state at divya/energy_transfer

2024-02-06 18:06:58 +02:00

88c419d716 Add steady state checks

markov pushed to main at mari/5-state-XB-model

2024-01-29 20:22:58 +02:00

a7b0c66e5d Add gitignore

7f32313a8c Add missing ODE solver

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markov commented on issue divya/energy_transfer#1

2023-12-15 10:18:22 +02:00

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vo2 = v*0.2 why is that?

when referring to experimental data, please specify paper and figure / subplot.

exp_data = exp_data * 806 - this is not good. instead, make a var with CS…

markov commented on issue divya/energy_transfer#1

2023-12-15 10:11:49 +02:00

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usually, we use micromol / min / g prot. please use this unit for rates and then convert to nmol O2 when needed for comparison.

already have question regarding PK_vmax - not sure regarding the…

markov commented on issue divya/energy_transfer#1

2023-12-15 09:49:12 +02:00

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Each constant has to have a reference next to it. If it is based on my recommendation then state that in the code too.

mg prot should always be spelled out. Right now it is hard to read comment…

markov commented on issue divya/energy_transfer#1

2023-12-06 14:46:05 +02:00

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class PK:
    def __init__(self, vmax, Kib=0.4, Kia=1e+4):
        self.vmax = vmax
        self.KiaKb = Kia*Kib ; self.Kib = Kib ; self.Kia = Kia
    
    def rate(self, ADP, PEP):
   …

markov commented on issue divya/energy_transfer#1

2023-12-05 11:55:32 +02:00

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PK reaction: make it then as random bi reaction between PEP and ADP. Just set PEP dissociation constant to a small one, so it would have a minimal impact on the rate. Then handle PEP as a almost…

markov opened issue divya/energy_transfer#1

2023-11-28 14:36:34 +02:00

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