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Re: Relations in RDF

From: James Malone <malone@ebi.ac.uk>
Date: Wed, 04 May 2011 17:23:04 +0100
Message-ID: <4DC17D68.60907@ebi.ac.uk>
To: public-semweb-lifesci@w3.org
Hi Jim,

Thanks this is useful. I have worked on both OBI and IAO and my issue 
with "is_about" has always been that is very generic, that is, 
everything that has a relationship between something else is somehow 
"about" it (gene-protein, eye-colour, liver-liver cancer). I do accept 
information is hard though. In your paper you use it for measurement 
data and samples I see; it is this sort of thing I have specifically in 
mind actually for our ArrayExpress gene expression data as most of it is 
measurement related. It is good food for thought for me though, thanks 
for your response.

Cheers,

James



On 04/05/2011 17:04, Jim McCusker wrote:
> The group I work in at Yale has published a paper on models like this,
> we try to re-use predicates when possible, and is_about is a core
> property we use:
>
> http://arxiv.org/abs/1012.1648
>
> On Wed, May 4, 2011 at 11:42 AM, James Malone<malone@ebi.ac.uk>  wrote:
>> Hi Scott, All,
>>
>> I was wondering what the general take is on predicates in RDF
>> representations used by the HCLS group. I've been looking at our RDF model
>> for Gene Expression Atlas at EBI and presently I'm using the same "is_about"
>> relation for a lot of the predicates as this is the lowest level of
>> constraint from the OBO Foundry folks for some of these information
>> relations. Alan Ruttenberg tells me that empirical evidence suggests that
>> using a larger number of relationships correlates to poorer ontologies.
>> However, I've also been told from various RDF advocates that having more
>> granular level predicates is useful for querying. Are there any thoughts
>> from the group on this? I have no preconceptions here (I have no reason to
>> disbelieve Alan or the RDF folks) so open to thoughts and suggestions.
>>
>> Cheers,
>>
>> James
>>
>> --
>> European Bioinformatics Institute,
>> Wellcome Trust Genome Campus,
>> Cambridge, CB10 1SD,
>> United Kingdom
>> Tel: + 44 (0) 1223 494 676
>> Fax: + 44 (0) 1223 494 468
>>
>>
>>
>>
>
>

-- 
European Bioinformatics Institute,
Wellcome Trust Genome Campus,
Cambridge, CB10 1SD,
United Kingdom
Tel: + 44 (0) 1223 494 676
Fax: + 44 (0) 1223 494 468
Received on Wednesday, 4 May 2011 16:23:34 GMT

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