Re: Ontology to link food and diseases

Hi Bernard,

I've just given a few examples, to give an idea of which kind of formal 
representation I'm looking for. I agree with you that some form of 
provenance/evidence tracking would be useful (even something as simple 
as pointers to the provenance of a whole data set and criteria that were 
used to build it).

Cheers,
Marco.


On 05/05/2015 08:58, Bernard Vatant wrote:
> Hi Marco
>
> This is a very touchy domain, where vocabularies and data should be 
> carefully wrapped within provenance, source, time stamp, authority. 
> More than anywhere else, beware of any positivist, unique thought, 
> thruth-based approach ...
> The examples you give are not facts, but just statements which should 
> be backed by literature. Exceptions and different viewpoints exist, etc.
> Think about the fact it will feed algorithms, at the end of the day. 
> And if you make them public, end in Google Knowledge Graph ...
>
> See http://bvatant.blogspot.fr/2015/02/statements-are-only-statements.html
>
>
> 2015-05-03 23:20 GMT+02:00 Marco Brandizi <brandizi@ebi.ac.uk 
> <mailto:brandizi@ebi.ac.uk>>:
>
>     Hi all,
>
>     I'm looking for an ontology/controlled vocabulary/alike that links
>     food ingredients/substances/dishes to human diseases/conditions,
>     like intolerances, allergies, diabetes etc.
>
>     Examples of information I'd like to find coded (please assume
>     they're true, I'm no expert):
>       - gluten must be avoided by people affected by coeliac disease
>       - omega-3 is good for people with high cholesterol
>       - sugar should be avoided by people with diabetes risk
>
>     I also would like linked data about commercial food products, but
>     even an ontology without 'instances' would be useful.
>
>     So far, I've found an amount of literature (eg, [1-3]) and
>     vocabularies like AGROVOC[4], but nothing like the above.
>
>     Thanks in advance for any help!
>     Marco
>
>     *[1] http://fruct.org/publications/abstract14/files/Kol_21.pdf*
>     [2]
>     *http://www.researchgate.net/publication/224331263_FOODS_A_Food-Oriented_Ontology-Driven_System
>     *[3] *http://www.hindawi.com/journals/tswj/aip/475410/
>     *[4] http://tinyurl.com/ndtdhwn
>
>     -- 
>
>     ===============================================================================
>     Marco Brandizi, PhD<brandizi@ebi.ac.uk>  <mailto:brandizi@ebi.ac.uk>,http://www.marcobrandizi.info
>
>     Functional Genomics Group - Sr Software Engineer
>     http://www.ebi.ac.uk/microarray
>
>     European Bioinformatics Institute (EMBL-EBI)
>     European Molecular Biology Laboratory
>     Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom
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>
>
>
>
> -- 
> *Bernard Vatant
> *
> Vocabularies & Data Engineering
> Tel : + 33 (0)9 71 48 84 59
> Skype : bernard.vatant
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-- 

===============================================================================
Marco Brandizi, PhD <brandizi@ebi.ac.uk>, http://www.marcobrandizi.info

Functional Genomics Group - Sr Software Engineer
http://www.ebi.ac.uk/microarray

European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom

Office V2-26, Phone: +44 (0)1223 492 613, Fax: +44 (0)1223 492 620