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Re: BioRDF Brainstorming -- Connecting the Health Care and Life Science KB to the Linking Open Data datasets

From: Richard Cyganiak <richard@cyganiak.de>
Date: Mon, 18 Feb 2008 17:18:09 +0000
To: Matthias Samwald <samwald@gmx.at>
Message-Id: <00BE2B6E-6913-4CF9-9006-CB6D4CE91598@cyganiak.de>
Cc: <public-semweb-lifesci@w3.org>, "Hausenblas, Michael" <michael.hausenblas@joanneum.at>

Matthias, Michael,

I think this is a great idea and I would really like to see some  
connections emerge between the HCLS web of data and the LOD web of  
data. If I can be of any help with some LOD and DBpedia expertise,  
just let me know.

Cheers,
Richard


On 15 Feb 2008, at 13:44, Matthias Samwald wrote:

> I added yet another item to the BioRDF Brainstorming document [1].   
> Here is the text that can also be found and edited on the Wiki page:
>
> ___HCLS KB mapping to the open linked data repositories___
>
> It would be great if two of the largest coherent Semantic Web  
> structures, namely the HCLS Knowledge Base and the Linking Open Data  
> datasets [2], could be mapped to each other.
> Some possible anchors in the Linking Open Data (LOD) datasets:
> * DBpedia (besides label-matching, we could also make use of  
> information like CAS number, Uniprot/Pubmed references etc. that are  
> part of DBpedia)
> * YAGO
> * W3C Wordnet
> * OpenCyc 1.0
>
> Some possible anchors in the HCLS KB:
> * All of the OBO ontologies
> * MeSH in SKOS
> * NeuronDB
>
> Since DBpedia is already mapped to most other datasets in the LOD  
> collection, DBpedia would probably be our primary target for such  
> mappings. Since the ontological foundation of most LOD datasets is  
> relatively loose compared to most HCLS datasets, the mapping should  
> not be done with owl:sameAs or owl:equivalentClass statements, but  
> rather with softer statements such as rdfs:seeAlso. The only  
> exception is OpenCyc, where a more stringent mapping with  
> owl:equivalentClass is possible. A mapping between the SKOS version  
> of MeSH and the SKOS version of Wikipedia categories could also  
> receive special attention: we could use owl:sameAs (although this is  
> discouraged by the SKOS specification) or the specialized SKOS  
> mapping vocabulary.
>
> Furthermore, we should:
> * Learn about the guidelines for publishing RDF/OWL according to the  
> practices agreed on by the Open Linked Data community [3]
> * Analyze which of the HCLS KB datasets are already in agreement  
> with these practices
> * Decide if some of our HCLS-oriented projects could benefit from  
> adhering to these practices. This should NOT trigger a general  
> discussion about URI issues and resolution mechanisms once again. At  
> this point, we simply want to evaluate who in the HCLS community it  
> motivated to published 'linked data'.
>
> Even if we decide that adhering to the linked data practices is not  
> of special interest to us, a mapping to the LOD datasets would still  
> be very valuable in itself.
>
> [1] http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Brainstorming
> [2] http://richard.cyganiak.de/2007/10/lod/
> [3] http://www4.wiwiss.fu-berlin.de/bizer/pub/LinkedDataTutorial/
>
>
> Cheers,
> Matthias Samwald
>
> Semantic Web Company, Austria
> DERI Galway, Ireland
>
>
>
>
>
>
>
>
>
> ----- Original Message ----- From: "Susie M Stephens" <STEPHENS_SUSIE_M@LILLY.COM 
> >
> To: <public-semweb-lifesci@w3.org>
> Sent: Monday, February 04, 2008 6:05 PM
> Subject: BioRDF Brainstorming
>
>
>>
>>
>> I've created a Wiki page where people can propose projects for  
>> BioRDF to
>> work on until the end of April [1]. It'd be great if you could post  
>> any
>> ideas that you may have.
>>
>> Cheers,
>>
>> Susie
>>
>> [1] http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Brainstorming
>
>
Received on Monday, 18 February 2008 17:18:21 GMT

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