WOLFRAM SYSTEM MODELER

Reactions

Partial models, extended by models in the package BioChem.Reactions

Package Contents

Basics

Basic properties of reactions

Modifiers

Partial models of modifiers to reactions

Uui

Uni-uni irreversible reaction

Uur

Uni-uni reversible reaction

Ubi

Uni-bi irreversible reaction

Ubr

Uni-bi reversible reaction

Uti

Uni-tri irreversible reaction

Utr

Uni-tri reversible reaction

Uqi

Uni-quad irreversible reaction

Uqr

Uni-quad reversible reaction

Umi

Uni-multi irreversible reaction

Umr

Uni-multi reversible reaction

Bui

Bi-uni irreversible reaction

Bur

Bi-uni reversible reaction

Bbi

Bi-bi irreversible reaction

Bbr

Bi-bi reversible reaction

Bti

Bi-tri irreversible reaction

Btr

Bi-tri reversible reaction

Bqi

Bi-quad irreversible reaction

Bqr

Bi-quad reversible reaction

Bmi

Bi-multi irreversible reaction

Bmr

Bi-multi reversible reaction

Tui

Tri-uni irreversible reaction

Tur

Tri-uni reversible reaction

Tbi

Tri-bi irreversible reaction

Tbr

Tri-bi reversible reaction

Tti

Tri-tri irreversible reaction

Ttr

Tri-tri reversible reaction

Tqi

Tri-quad irreversible reaction

Tqr

Tri-quad reversible reaction

Tmi

Tri-multi irreversible reaction

Tmr

Tri-multi reversible reaction

Qui

Quad-uni irreversible reaction

Qur

Quad-uni reversible reaction

Qbi

Quad-bi irreversible reaction

Qbr

Quad-bi reversible reaction

Qti

Quad-tri irreversible reaction

Qtr

Quad-tri reversible reaction

Qqi

Quad-quad irreversible reaction

Qqr

Quad-quad reversible reaction

Qmi

Quad-multi irreversible reaction

Qmr

Quad-multi reversible reaction

Mui

Multi-uni irreversible reaction

Mur

Multi-uni reversible reaction

Mbi

Multi-bi irreversible reaction

Mbr

Multi-bi reversible reaction

Mti

Multi-tri irreversible reaction

Mtr

Multi-tri reversible reaction

Mqi

Multi-quad irreversible reaction

Mqr

Multi-quad reversible reaction

Mmi

Multi-multi irreversible reaction

Mmr

Multi-multi reversible reaction

Information

This package contains partial reaction models that can be used as templates when composing new reactions. In fact all reactions found in the Reactions package are based on these partial reaction models.

All reactions need at least one substrate and at least one product. This package contains base classes for any combination of substrates and products for reversible as well as irreversible reactions, as illustrated in Fig. 1. The first letter in the reaction name indicates the number of substrates, and the second the number of products. Finally, the third letter indicates if the reaction is reversible (r) or irreversible (i). All this information is also illustrated by the icon.

Note that all partial reaction models include definitions of stoichiometric coefficients (nS1, nS2, ... and nP1, nP2, ...). These coefficients correspond to the stoichiometry attribute in SBML and should not appear in the reaction rate formula in the reaction.
Fig. 1 Some of the reactions

Wolfram Language

In[1]:=
SystemModel["BioChem.Interfaces.Reactions"]
Out[1]:=