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Re: 'Variants' and Chromosome Modelling

From: Joachim Baran <joachim.baran@gmail.com>
Date: Thu, 21 Mar 2013 18:20:25 -0400
Cc: w3c semweb HCLS <public-semweb-lifesci@w3.org>
Message-Id: <22373702-99F3-48CF-9975-83662FC3DC87@gmail.com>
To: Jeremy J Carroll <jjc@syapse.com>

On 2013-03-21, at 6:00 PM, Jeremy J Carroll <jjc@syapse.com> wrote:
> "instead of saying chrM it would have been solved by
> using http://my.lab.org/confidential/patientXXYYZZ/genome/sampleXX/ChrM/assemblyTTv43/VariantCalls5"
> In this way of thinking, I am not really interested in an assembly of ChrM for patient XXYZZ's sampleXX, and so Jerven URI to refer to that is not so useful.
> I guess I am surprised to see Jerven suggesting a URI in which the assembly is part of the ChrM rather than the other way round.
  I think the information in Jerven's example is an unordered tuple, so the hierarchy as it appears in the URI is not strict as such. In other words: parts of the URI can be swapped.

  Sorry, if this has been pointed out before, but is it not possible to reference the location via FALDO (https://github.com/JervenBolleman/FALDO)? In practical terms, I would create an individual with Jerven's URI, link that to one or more FALDO Region individuals, and then attach additional information to Jerven's URI as further properties.

Received on Thursday, 21 March 2013 22:20:55 UTC

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