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Re: "molar" for concentration

From: Jim McCusker <james.mccusker@yale.edu>
Date: Wed, 17 Aug 2011 12:34:49 -0400
Message-ID: <CAAtgn=QfYLSxBvrhYNPNJev9vk6yvRkoS1MuiUWp+SmE=DShNg@mail.gmail.com>
To: Helena Deus <helenadeus@gmail.com>
Cc: Michael Miller <Michael.Miller@systemsbiology.org>, W3C HCLSIG hcls <public-semweb-lifesci@w3.org>
Ah, I thought you were looking for predicates for datatype properties.
This makes much more sense now. When I said you could compose a molar
unit for concentration, I was thinking more that it would be a new URI
that uses MUO's predicates for describing molar concentration in terms
of moles/liter, which is easy in MUO. They might even accept a new
unit for that, they may just have not seen the need before.

Jim

On Wed, Aug 17, 2011 at 12:14 PM, Helena Deus <helenadeus@gmail.com> wrote:
> Hi Michael,
> I was looking for a way to say in RDF that some concentration is measured in
>  "molar";
> e.g.
> <assay>  <concentration>  "5"^^<http://someuri/molar>
> Yes, Molar = mole/Liter, but from my (limited) understanding of datatypes,
> there are no restrictions as to what can be used in the datatype URI
> I'm not sure how to express the statement above if I need to combine mole
> and liter to create a datatype...
> Would something like:
> <assay>  <concentration>  "5"^^[<http://someuri/mole>
> <http://someuri/division> <http://someuri/liter>]
> Work?
> Cheers,
> Lena
>
> On Wed, Aug 17, 2011 at 4:03 PM, Michael Miller
> <Michael.Miller@systemsbiology.org> wrote:
>>
>> hi lena,
>>
>>
>>
>> after looking at wikipedia i see what you mean that it isn't a unit per
>> se, it is a concentration of a solution, that is by definition a combination
>> of a value of 1 with an SI unit of 1 mol\L.  so it is certainly a property
>> of the solution but i don't see how it is a datatype.  in programming terms
>> i define a variable to be of a certain datatype:
>>
>>
>>
>> int count = 5
>>
>>
>>
>> what does it mean to say,
>>
>>
>>
>> Molar solution = ??
>>
>>
>>
>> cheers,
>>
>> michael
>>
>>
>>
>> From: Helena Deus [mailto:helenadeus@gmail.com]
>> Sent: Tuesday, August 16, 2011 3:17 PM
>> To: Michael Miller
>> Cc: Jim McCusker; Matthias Samwald; W3C HCLSIG hcls
>>
>> Subject: Re: "molar" for concentration
>>
>>
>>
>> Hi Michael,
>>
>>
>>
>> I did mean datatype. I do like the MUO / SI solution, but it's strange
>> that they don't describe "Molar" (much more widely used) along with "mole"?
>> Sure enough I can "build" a Molar, as Jim indicated... but I can also
>> "build" a month or an acceleration from days or meters+time, and yet they
>> provide it... Interesting...
>>
>>
>>
>> Thanks all,
>>
>> Cheers,
>>
>> Lena
>>
>>
>>
>> On Tue, Aug 16, 2011 at 9:15 PM, Michael Miller
>> <Michael.Miller@systemsbiology.org> wrote:
>>
>> hi all,
>>
>> i did take a quick look at MUO and it does seem sane.
>>
>> "For instance, MUO has the ability to assert units of measure on n-ary
>>
>> observations, ..."
>>
>> and MUO appears based on SI.
>>
>> cheers,
>> michael
>>
>> > -----Original Message-----
>> > From: public-semweb-lifesci-request@w3.org [mailto:public-semweb-
>>
>> > lifesci-request@w3.org] On Behalf Of Jim McCusker
>> > Sent: Tuesday, August 16, 2011 12:58 PM
>> > To: Matthias Samwald
>> > Cc: Helena Deus; W3C HCLSIG hcls
>>
>> > Subject: Re: "molar" for concentration
>> >
>>
>> > In general, you really want to be able to have additional levels of
>> > qualification. For instance, MUO has the ability to assert units of
>> > measure on n-ary observations, as well as to provide prefUnit
>> > annotations on properties. An ontology that generates property URIs
>> > for every quality and unit of measure would be huge and very
>> > cumbersome, and I think the consensus is to annotate your own
>> > properties with units of measure.
>> >
>> > Jim
>> >
>> > On Tue, Aug 16, 2011 at 3:43 PM, Matthias Samwald
>> > <matthias.samwald@meduniwien.ac.at> wrote:
>> > > Besides the ontologies already mentioned, the unit ontology /
>> > > UO (http://obofoundry.org/cgi-bin/detail.cgi?id=unit) also has a
>> > class for
>> > > "mole" and one for "molar mass unit". But you actually wanted a URI
>> > for a
>> > > datatype so this (as well as the other ontologies mentioned before)
>> > is
>> > > probably not what you wanted.
>> > >
>> > > Does anybody know of an ontology that defines scientific datatypes in
>> > OWL 2?
>> > >
>> > >  - Matthias
>> > >
>> > > From: Helena Deus
>> > > Sent: Tuesday, August 16, 2011 5:23 PM
>> > > To: W3C HCLSIG hcls
>> > > Subject: "molar" for concentration
>> > > Hi all,
>> > > Wondering if anyone ever needed/came across a URI for datatype "M"
>> > (molar,
>> > > as in 10 M -> 10 Molar).
>> > > http://en.wikipedia.org/wiki/Molar_concentration
>> > >
>> > > Cheers,
>> > > --
>> > > Helena F. Deus
>> > > Post-Doctoral Researcher at DERI/NUIG
>> > > http://lenadeus.info/
>> > >
>> >
>> >
>> >
>> > --
>> > Jim McCusker
>> > Programmer Analyst
>> > Krauthammer Lab, Pathology Informatics
>> > Yale School of Medicine
>> > james.mccusker@yale.edu | (203) 785-6330
>> > http://krauthammerlab.med.yale.edu
>> >
>> > PhD Student
>> > Tetherless World Constellation
>> > Rensselaer Polytechnic Institute
>> > mccusj@cs.rpi.edu
>> > http://tw.rpi.edu
>>
>>
>>
>> --
>> Helena F. Deus
>>
>> Post-Doctoral Researcher at DERI/NUIG
>>
>> http://lenadeus.info/
>>
>>
>
>
> --
> Helena F. Deus
> Post-Doctoral Researcher at DERI/NUIG
> http://lenadeus.info/
>



-- 
Jim McCusker
Programmer Analyst
Krauthammer Lab, Pathology Informatics
Yale School of Medicine
james.mccusker@yale.edu | (203) 785-6330
http://krauthammerlab.med.yale.edu

PhD Student
Tetherless World Constellation
Rensselaer Polytechnic Institute
mccusj@cs.rpi.edu
http://tw.rpi.edu
Received on Wednesday, 17 August 2011 16:35:38 UTC

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