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> Say you have a gene network model of nodes, and edges that links between
> the nodes:
> -Nodes represent genes.
> -Edges represents document(s) that specify the relationships between the
> two nodes(genes).

I am still not certain to understand what you mean by "document", but it
seems to me it is a relationship between two genes, like "activates", or
"represses".

Therefore, one should use reactants for the upstream genes and products
for the downstream. One can then use piecewise construct to obtain
discrete model, like if A=0, dB/dt=k, otherwise dB/dt=0, where A is
upstrea; and B downstream.

etc.

--
Nicolas LE NOVÈRE, Computational Neurobiology,
EMBL-EBI, Wellcome-Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
Tel: +44(0)1223 494 521, Fax: +44(0)1223 494 468, Mob: +33(0)689218676
http://www.ebi.ac.uk/~lenov