W3C home > Mailing lists > Public > public-bioschemas@w3.org > May 2017

Re: Fwd: Re: Enumerations and inference rules

From: Rodrigo Lopez <rls@ebi.ac.uk>
Date: Mon, 29 May 2017 13:32:11 +0100
To: public-bioschemas@w3.org
Message-ID: <e5a06570-4b05-ff30-aa57-f81cde400a7e@ebi.ac.uk>
Hi,

IMHO: This depends largely on how inference is determined. In the case 
of ProteinEntity the 'thing' can be determined by a protein similarity 
search, such that 'thing' is related to other 'things' (e.g. 
ProteinEntities), because their sequences share a certain level of 
similarity or homology. This applies to 'things' within datasets such as 
sequence databases (e.g. UniProtKB, PDBe sequences, etc.). I also think 
that in this case, this is extends to Product as per products in a dataset.

On the other hand, the 'Service' perspective can also be useful, in that 
knowledge of the methods (the services) required/used to determine 
similarity is taken into consideration. This applies to different 
methods of determining sequence similarity and would apply and extend to 
'services' such as blast, fasta, HHMER, etc.

My two cents.

Kind regards,

R:)



On 25/05/2017 09:41, ljgarcia wrote:
>
>
> -------- Original Message --------
> Subject: Re: Enumerations
> Date: 2017-05-24 17:52
> From: "Gray, Alasdair J G" <A.J.G.Gray@hw.ac.uk>
> To: ljgarcia <ljgarcia@ebi.ac.uk>
>
> Hi Leyla
>
> Could you resend this email as a question to the
> public-bioschemas@w3.org list?
> It would be good to have a record of these discussions.
>
> Alasdair
>
>> On 24 May 2017, at 16:57, ljgarcia <ljgarcia@ebi.ac.uk> wrote:
>>
>> Hi Alasdair,
>>
>> Could we ask about inference rules as well?
>>
>> For instance, we have the property isRelatedTo
>> (http://schema.org/isRelatedTo) that is used in Product and Service
>> and expects an object with type Product or Service. If I use the same
>> property to say ProteinEntity isRelatedTo Thing, will it be inferred
>> that ProteinEntity and Thing extend from either a Product or a
>> Service? Or simply isRelatedTo will be then used in Product, Service
>> and ProteinEntity expecting an object with type Thing?
>>
>> Also, we have the property dataset (http://schema.org/dataset). Would
>> it be right to use this same property in ProteinEntity - dataset -
>> Dataset or URL? Or because the way it is currently defined it can only
>> take objects belonging to Dataset?
>>
>> These questions together with some more documentation about
>> Ennumerations could be solved by email, so we save time tomorrow for
>> discussing (live) other things.
>>
>> Regards,
>>
>> On 2017-05-24 13:06, Gray, Alasdair J G wrote:
>> Hi
>> On 4 May 2017, at 17:40, ljgarcia <ljgarcia@ebi.ac.uk> wrote:
>> Hi,
>> We need to use an enumeration
>> (http://health-lifesci.schema.org/Enumeration) but have not find
>> much more information about how to model this. any suggestions?
>> Sorry, I have no direct experience with it. Perhaps we can discuss
>> today or tomorrow.
>> Alasdair
>> Regards,
>> Alasdair J G Gray
>> Fellow of the Higher Education Academy
>> Assistant Professor in Computer Science,
>> School of Mathematical and Computer Sciences
>> (Athena SWAN Bronze Award)
>> Heriot-Watt University, Edinburgh UK.
>> Email: A.J.G.Gray@hw.ac.uk
>> Web: http://www.macs.hw.ac.uk/~ajg33
>> ORCID: http://orcid.org/0000-0002-5711-4872
>> Office: Earl Mountbatten Building 1.39
>> Twitter: @gray_alasdair
>
> Alasdair J G Gray
> Fellow of the Higher Education Academy
> Assistant Professor in Computer Science,
> School of Mathematical and Computer Sciences
> (Athena SWAN Bronze Award)
> Heriot-Watt University, Edinburgh UK.
>
> Email: A.J.G.Gray@hw.ac.uk
> Web: http://www.macs.hw.ac.uk/~ajg33
> ORCID: http://orcid.org/0000-0002-5711-4872
> Office: Earl Mountbatten Building 1.39
> Twitter: @gray_alasdair
Received on Monday, 29 May 2017 15:42:40 UTC

This archive was generated by hypermail 2.3.1 : Monday, 23 October 2017 15:49:09 UTC