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Re: [Fwd: Re: cell types, brain regions mentioned in gensat]

From: kc28 <kei.cheung@yale.edu>
Date: Fri, 02 Mar 2007 18:45:38 -0500
To: "Kashyap, Vipul" <VKASHYAP1@PARTNERS.ORG>
Cc: Alan Ruttenberg <alanruttenberg@gmail.com>, HCLS <public-semweb-lifesci@w3.org>
Message-id: <45E8B722.1050802@yale.edu>

Hi Vipul,

Yes, that's exactly what I meant.

-Kei

Kashyap, Vipul wrote:

>I think what Kei is asking for (correct me if I got it wrong) is that he would
>like the ability to define something of the following sort:
>
>EquivalentClass(X, intersectionOf(Y, Restriction(locatedinBrainRegion
>allValuesFrom(Z))
>
>Is this what you had in mind? 
>
>I guess, one could define macros (using the lisp backquote mechanism) where
>these variables could be plugges in at run time and then sent to the OWL
>reasoner.
>
>As long as these variables are instantiated, you are OK, but without
>instantiation you end up in higher order logics, which might be beyond OWL full.
>So that will not be feasible.
>
>Am not sure if read your right, though?
>
>---Vipul
>
>  
>
>>>On that page, it describes the following OWL axiom example:
>>>
>>>*EquivalentClass*(CerebellarPurkinjeCell *intersectionOf*
>>>(PurkinjeNeuron, *Restriction*(locatedInBrainRegion *allValuesFrom*
>>>(Cerebellum)))
>>>
>>>We can use a similar axiom to define the localization of a certain
>>>type of neuron cell type (CA1 pyramidal neuron) in a particular
>>>brain region (e.g., hippocampus). Due to my limited knowledge of
>>>OWL, can this type of axioms/rules be parameterized (e.g., cell
>>>type and brain region can be treated as variables)?
>>>      
>>>
>>Not sure what you mean by parameterized here. Certainly we could,
>>from a spreadsheet encoding this information, generate the
>>appropriate classes.
>>
>>Also, in LSW or (dig) one can easily construct one of these classes
>>on the fly and ask what the equivalent, subclasses, and superclasses
>>are.
>>
>>To find all cells located in, e.g. Cerebellum you would ask for
>>subclasses of
>>
>>intersectionOf*(Cell, *Restriction*(locatedInBrainRegion
>>*allValuesFrom*(Cerebellum))
>>
>>Don't think I'd use locatedInBrainRegion though, probably just
>>locatedIn, or partOf, or perhaps derivedFrom some PartOf if the cells
>>were no longer in the brain (i.e. in a dish).
>>
>>-Alan
>>
>>    
>>
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Received on Friday, 2 March 2007 23:47:39 UTC

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