Forums

On Fri, 6 Jan 2006 hugh.d.spence@gsk.com wrote:

>
> Without the connectivity, you're not only going to get
> "Michaelis-Menten", you're going to get "Michaelis-Menton",
> "Michelis-Menten", etc. as we have in the past. There is no checking or
> constraining from external sources, so GO is totally irrelevant. Kindly
> explain why this is better than a notes annotation when BOTH are
> unconstrained.
>
> If you do connect to the site to retrieve the sboTerm, I repeat
> that you do not have the excuse not to write the mathML as well.

Sorry, I misunderstood your "connectivity". You are right that SBO is
only useful if you can access the vocabulary.

When I advocated the absence of MathML, I though of Reactome export
for instance, where we know that a reaction follow let's say a
reversible second order mass-action kinetics, but we don't know the
quantitative parameters. There is no way to write the MathML, but I
maintain that this reaction annotated by the adequate SBO term carries
more information than without. For instance, a software could
automaticaly create a template for the kineticLaw and offer to the
user the correct number of entry widget to write the parameter values.

--
Nicolas LE NOVÈRE, Computational Neurobiology,
EMBL-EBI, Wellcome-Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
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