Library of metabolic components in CellML

Matthias Koenig [1] & Randall Britten [2]
[1] Charite Berlin, matthias.koenig@charite.de
[2] Auckland Bioengineering Institute

Implementation of standardized reaction kinetics in CellML for reuse in metabolic models. The library covers the metabolic function definitions for processes from COPASI 4.8 (Bulid 35).

Naming Conventions

Substrate is named S (S1, S2, ... in case of multiple substrates)
Products is named P (P1, P2, ... in case of multiple productes)
Inhibitor is named I (I1, I2, ...)
Activator is named A (A1, A2, ...)
Modifier is named M (M1, M2, ...)
Km values are subscripted with the respective substrates or products (P -> Km_P, S -> Km_S, P1 -> Km_P1, ...)
Analog convention for inhibition constants Ki and activation constants Ka.