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Re: Ontology to link food and diseases

From: Marco Brandizi <brandizi@ebi.ac.uk>
Date: Wed, 06 May 2015 16:56:59 +0100
Message-ID: <554A39CB.2090501@ebi.ac.uk>
To: "Svensson, Lars" <L.Svensson@dnb.de>, public-semweb-lifesci@w3.org, Linking Open Data <public-lod@w3.org>
Hi Lars,

thanks for your suggestion.
Yes, Nanopublications or Annotation Ontology 
(http://code.google.com/p/annotation-ontology/) would be good to model 
supporting evidence.

Best,
Marco.


On 06/05/2015 16:07, Svensson, Lars wrote:
>
> Hi Marco,
>
> This sounds like a use case for nanopublications [1]. They define it as
>
> [[
>
> A nanopublication is the smallest unit of publishable information: an 
> assertion about anything that can be uniquely identified and 
> attributed to its author.
>
> Individual nanopublications can be cited by others and tracked for 
> their impact on the community.
>
> ]]
>
> [1] http://nanopub.org/wordpress/
>
> Best,
>
> Lars
>
> *** Lesen. Hören. Wissen. Deutsche Nationalbibliothek ***
>
> -- 
>
> Dr. Lars G. Svensson
>
> Deutsche Nationalbibliothek
>
> Informationsinfrastruktur und Bestanderhaltung
>
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>
> *From:*Bernard Vatant [mailto:bernard.vatant@mondeca.com]
> *Sent:* Tuesday, May 05, 2015 9:59 AM
> *To:* Marco Brandizi
> *Cc:* Linking Open Data
> *Subject:* [Caution: Message contains Redirect URL content] Re: 
> Ontology to link food and diseases
>
> 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
>   
> Office V2-26, Phone:+44 (0)1223 492 613  <tel:%2B44%20%280%291223%20492%20613>, Fax:+44 (0)1223 492 620  <tel:%2B44%20%280%291223%20492%20620>   
>
>
>
>
> -- 
>
> *Bernard Vatant*
>
> Vocabularies & Data Engineering
>
> Tel :  + 33 (0)9 71 48 84 59
>
> Skype :bernard.vatant
>
> http://google.com/+BernardVatant
>
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>
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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
Received on Wednesday, 6 May 2015 15:57:25 UTC

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