Re: Ontology to link food and diseases

In light of Bernard's comments (nice job, BTW) may I suggest StratML ...

(http://www.iso.org/iso/catalogue_detail.htm?csnumber=59859)

StratML helps prevent "man-in-the-middle" substitution attacks on code sets at the sub-domain (submitter) level.  These attacks are kin to SQL Injection Attacks .. a SPARQL Injection Attack, so to speak.  When the encoding formats are well defined and complete (with exception handling) - and this is certainly the case with Health practices - then the code set still follows the rules (http://en.wikipedia.org/wiki/Kerckhoffs%27s_principle) but excludes "security by obscurity" as a motivation.

it's not a bug, it's a "feature".  No, it's a bug all right, and Biologists discovered it long ago ...

"Dans les champs de l'observation le hasard ne favorise que les esprits préparés."
(In the fields of observation chance favors only the prepared mind.)
 -- Louis Pasteur (1822 – 1895)

Happy Cinco de Mayo

-- Gannon
--------------------------------------------
On Tue, 5/5/15, Marco Brandizi <brandizi@ebi.ac.uk> wrote:

 Subject: Re: Ontology to link food and diseases
 To: public-lod@w3.org
 Date: Tuesday, May 5, 2015, 4:39 AM
 
 
     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>:
 
                   
                      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>,
 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  
 
                     
                   
                 
                 
 
                 
 
                 
 
                 -- 
 
                 
                   Bernard
                         Vatant
 
                       
                       Vocabularies & Data
 Engineering
 
                         
                           Tel
                               :  + 33 (0)9 71 48
                               84 59
 
                             
                             Skype
                                 : bernard.vatant
 
                             
                             http://google.com/+BernardVatant
 
                             
                             
                              
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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 Tuesday, 5 May 2015 17:04:39 UTC