Biochemical fluctuations, optimisation and the linear noise approximation

BMC Systems Biology

Table 1 Optimisation of the coefficient of variation of phospho-Hsp27 particle numbers

Reactions	Changes (no constraints)	Changes (constraints)
complex + MKK6 ↔ complex_MKK6	⇒	⇒
complex_MKK6 → complex + MKK6P	⇒	⇒
MKK6_phosphatase + MKK6P ↔ Ppase_MKK6P	⇐	~
Ppase_MKK6P → MKK6_phosphatase + MKK6	⇐	⇐
complex + MKK3 ↔ complex_MKK3	⇒	⇒
complex_MKK3 → complex + MKK3P	⇒	⇒
MKK3_phosphatase + MKK3P ↔ Ppase_MKK3P	⇐	⇐
Ppase_MKK3P → MKK3_phosphatase + MKK3	⇐	⇐
MKK6P + p38 ↔ MKK6P_p38	⇒	⇒
MKK6P_p38 → MKK6P + p38P	⇒	⇒
MKK3P + p38 ↔ MKK3P_p38	⇒	⇐
MKK3P_p38 → MKK3P + p38P	⇒	⇐
p38_phosphatase + p38P ↔ Ppase_38P	⇐	⇔
Ppase_p38P → p38_phosphatase + p38	⇐	⇒

Optimisation of the coefficient of variation of phospho-Hsp27 particle numbers with regards to all 21 reaction parameters of the listed reactions ([LPS]₀ = 1 ng/ml). "Changes (no constraints)" means that the coefficient was optimised without any further constraints, whereas "Changes (constrained)" means that during optimisation the phospho-Hsp27 particle number was constrained in the optimisation to stay below the limit of 4.65 million particles. "⇒" ("⇐") denotes an increase (decrease) in the forward rate and a decrease (increase) in the reverse rate, in case of a reversible reaction. "⇔" means that both forward and reaction rates are increased and "~" means that the optimisation led to no clear change

ISSN: 1752-0509