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[BioRDF] Re: Associated Traditional Chinese Medicine Dataset loaded

From: M. Scott Marshall <marshall@science.uva.nl>
Date: Thu, 26 Feb 2009 12:41:53 +0100
Message-ID: <49A68001.1050000@science.uva.nl>
To: Jun Zhao <jun.zhao@zoo.ox.ac.uk>
CC: Kei Cheung <kei.cheung@yale.edu>, Kingsley Idehen <kidehen@openlinksw.com>, Adrian Paschke <adrian.paschke@gmx.de>, "'Rob Frost'" <frost@vectorc.com>, eric@w3c.org, "'Matthias Samwald'" <samwald@gmx.at>, W3C HCLSIG hcls <public-semweb-lifesci@w3.org>
[Now with BioRDF tag in subject to set example. :/ ]

Hi June,

We're trying to move some of these threads that are of general interest
to the main list with the tag [BioRDF]. I hope that you don't mind if my
reply CC's public-semweb-lifesci@w3.org.

Jun Zhao wrote:
> Dear all,
> Great to know that you are very interested in this dataset. I have 
> converted the whole dataset into RDF/XML. However, I would like to do 
> some test before I release it to you within the next week.
> I have noticed that there might be some potential misinterpretations in 
> the data I shared with Adrian last week. I think it is not a very easy 
> task to delete RDF triples from a store. It might be easy in Virtuoso if 
> the triples are uploaded in a specific named graph. I am not sure how 
> easy it would be for Sesame/AllegroGraph. I plan to do some queries with 

Sesame 2 has named graphs so it should be about the same as for Virtuoso.

I looked at Allegrographs page and was confused at first about where
firefox found 'named graphs' (it's in text that is not initially
visible) in the main page http://agraph.franz.com/allegrograph/ under
Additional Features.

> # Named Graphs for Weights, Trust Factors, Provenance
> AllegroGraph actually stores quints. A triple in AllegroGraph contains 5 slots, the first three being subject (s), predicate (p), and object (o). The remaining two are a named-graph slot (g) and a unique id assigned by AllegroGraph. The id slot is used for internal administrative purposes, but can also be referred to by other triples directly.
> The W3C proposal is to use the 'named-graph' slot for clustering triples. So for example, you load a file with triples into AllegroGraph and you use the filename as the named-graph. This way, if there are changes to the triple file, you just update those triples in the named graph that came from the original file. However, with AllegroGraph, you can also put other attributes such as weights, trust factors, times, latitudes, longitudes, etc, into the named graph slot.

BTW, it's nice to see such explicit support for provenance.

Also, Sesame supports removing triples that match a given pattern (a
paste from the openrdf-workbench web interface):

> 		Please specify subject, predicate and/or object of the
> 		statements that should be removed. Empty fields match with any
> 		subject, predicate or object. URIs, bNodes and literals should
> 		be entered using the N-Triples encoding. Example values in
> 		N-Triples encoding are:

>       				URI:
>       				<http://foo.com/bar>
>     *
>       				BNode:
>       				_:nodeID
>     *
>       				Literal:
>       				"Hello"
>       				,
>       				"Hello"@en
>       				and
>       				"Hello"^^<http://bar.com/foo>

I should note that the openrdf-workbench probably won't 'talk' to
Allegrograph, so this feature probably won't solve your problem.

Received on Thursday, 26 February 2009 11:41:54 UTC

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