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[cellml-discussion] CellML & OWL


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  • From: heiland at indiana.edu (Randy Heiland)
  • Subject: [cellml-discussion] CellML & OWL
  • Date: Sun, 1 Feb 2009 21:06:14 -0500
Hi Sarala,

Since it's been awhile, thought I'd inquire about the status of this
work and if you might have any draft papers, etc, you'd be willing to
share yet?

thanks, Randy

Begin forwarded message:

>
> Message: 1
> Date: Sat, 6 Sep 2008 07:50:11 -0400
> From: Randy Heiland <heiland at indiana.edu>
> Subject: [cellml-discussion] CellML OWL work in progress
> To: sarala.dissanayake at auckland.ac.nz
> Cc: cellml-discussion at cellml.org
> Message-ID: <8DDDAA42-0C3C-4B4D-AFC5-DAEF007DFEAB at indiana.edu>
> Content-Type: text/plain; charset="us-ascii"; Format="flowed"
>
> Thanks for the reply, Sarala. I/we look forward to your drafts.
>
> best, Randy
>
> Begin forwarded message:
>
>> From: cellml-discussion-request at cellml.org
>> Date: September 4, 2008 8:00:01 PM EDT
>> To: cellml-discussion at cellml.org
>> Subject: cellml-discussion Digest, Vol 50, Issue 4
>> Reply-To: cellml-discussion at cellml.org
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>> Today's Topics:
>>
>> 1. CellML OWL work in progress (Sarala Dissanayake)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Thu, 04 Sep 2008 20:32:33 +1200
>> From: Sarala Dissanayake <sarala.dissanayake at auckland.ac.nz>
>> Subject: [cellml-discussion] CellML OWL work in progress
>> To: CellML Discussion List <cellml-discussion at cellml.org>
>> Message-ID:
>> <20080904203233.ui1ruzjkoc4oc00s at webmail.bioeng.auckland.ac.nz>
>> Content-Type: text/plain; charset=ISO-8859-1; DelSp="Yes";
>> format="flowed"
>>
>> Hi Randy and Ely,
>>
>> I'm developing a framework for annotating and visualizing CellML
>> models. A solution has been developed that involves:
>> - an ontology for storing CellML models in OWL format (CellMLOWL) and
>> a set of rules for binding these CellMLOWL instances to CellML
>> models.
>> - an ontology which represents biophysical and biological concepts
>> that are covered in CellML models (CellMLBio) and a set of rules for
>> binding these concepts to CellMLOWL models;
>> - a specification for building visual templates that support a visual
>> language that can be used to represent all biophysical and biological
>> processes covered in CellMLBio ontology and the rules for binding the
>> visual language to concepts within the CellMLBio ontology;
>> - a visual editing tool, that combines the visual language and
>> ontologies to visualize CellML models.
>>
>> I'm currently writing up my thesis and 3 papers. I should be able to
>> make these available to you in draft form soon.
>>
>> Cheers,
>> Sarala
>>
>> ----------------------------------------------------------------
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>>
>>
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  • [cellml-discussion] CellML & OWL, Randy Heiland, 02/02/2009

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