[Ontology-editors] small molecule metabolism

[Harold Drabkin]

One of my professors used to say that "biochemistry" involved substrates 
and products  that could go through a dialysis bag, whereas molecular 
biology involved the substrates and products that couldn't .... back in 
the days of old...



Valerie Wood wrote:
>
>
> A paper I was reading today refers to this subset:
> http://www.sciencemag.org/cgi/content/abstract/324/5923/85
> and refers to S. cerevisiae "metabolism" as comprising ~1200 orfs and 
> 800 metabolites
>
> I wonder if there is a way to define these metabolic processes that 
> does not refer to molecule size or type at all...
> ...
>
>
>
>
> Midori Harris wrote:
>
>> Hi,
>>
>> Val has asked about adding a term to group small molecule metabolism 
>> separately from macromolecule metabolism. The initial request came a 
>> few months ago, and has been reiterated today. We've been hung up on 
>> how such a term could be named and defined, since "small molecule" is 
>> kind of a woolly concept that is hard to map onto, say, one branch of 
>> ChEBI.
>>
>> Does anyone have any clever ideas for the ontology? Or are there 
>> tools that could help with Val's genome-wide analysis using the 
>> existing GO graph?
>>
>> https://sourceforge.net/tracker/index.php?func=detail&aid=2106200&group_id=36855&atid=440764 
>>
>>
>> Thanks,
>> midori
>>
>
>
>