- From: Eric Prud'hommeaux <eric@w3.org>
- Date: Tue, 11 Mar 2008 16:53:44 -0400
- To: "Kashyap, Vipul" <VKASHYAP1@PARTNERS.ORG>
- Cc: public-hcls-coi@w3.org, public-semweb-lifesci@w3.org
- Message-ID: <20080311205344.GA9840@w3.org>
* Kashyap, Vipul <VKASHYAP1@PARTNERS.ORG> [2008-03-07 10:05-0500]
> 11th March Agenda:
>
> Telcon Chair: Eric Prud'hommeaux
>
> 1. Roll Call
> 2. Review Action Items from previous calls.
> 3. ACGT ontology representation of Diabetes Patient Data - Holger
> 5. Mappings if any between ACGT ontology and CDISC/HL7
covered 3 and 5 in meeting
> 4. Discussion on how CDISC/HL7 is reused, if at all
> 6. Discussion on Scope for POC - Labs, Medications, Vital Signs
> 7. Discussion on Logistics for loading and using Patient Data - Parsa/Eric P
4,6,7 postponed
minutes at: http://www.w3.org/2008/03/11-hcls-minutes
included inline:
COI
11 Mar 2008
See also: [2]IRC log and [3]Vipul's agenda
Attendees
Present
EricP, Jennifer, Rachel, Kerstin_Forsberg, Bo, Jyoti,
holger_stenzhor1, Helen_Chen, CristianCocos
Regrets
Chair
ericP
Scribe
Jyoti
Contents
* [4]Topics
1. [5]ACGT ontology representation of Diabetes Patient Data
2. [6]Discussion on Logistics for loading and using Patient Data
3. [7]Mappings if any between ACGT ontology and CDISC/HL7
4. [8]overall mapping plan
* [9]Summary of Action Items
__________________________________________________________________
ACGT ontology representation of Diabetes Patient Data
ACGT presentation:
[10]PDF
[11]Powerpoint
Holger: I spoke with Chris this morning and will be presenting the
slides
<ericP> => [12]http://www.ifomis.org/acgt/coi-presentation.ppt slides
Cris: I will give the presentation. ACGT means advanced clinical
genomic trails.
ACGT is an OWL-DL ontology. Formally defined relations and other
restrictions.
ACGT leverages BFO (Basic Formal Ontology) as the top-level ontology
<ericP> Chris: adding an OWL anatomy ontology
As of Oct 2007, there were a total of 1109 classes (primitive: 1028,
defined: 81)
Cris: there were a total of 121 restrictions
<ericP> Cris: constraints extension includes identifying disjoint
classes
Cris: important upcoming work is to start adding FMA (anatomy) classes
<ericP> Helen: will you be able to do classifications with your
reasoner after adding FMA?
<ericP> Cris: old slides; we have given up on this because FMA doesn't
lend itself well to OWL
<ericP> Helen: try Galen
<ericP> Cris: Alan Rector suggested we set our sights on something more
modest
Cris: we spoke with Alan Rector and he suggested something less complex
... "Patient" is a role in ACGT and Jennifer agrees with that
characterization
ericP: difference between a role and a object?
Cris: role is a dependent continuant and object is an independent
continuant.
... dependent continuant depends on something else for its own
existence. E.g., quality of an "item" depends on the "item" for its own
existence.
... role is a dependent continuant because certain entities can play
different roles, and so it can attach to independent continuant at
different times
<ericP> [slide 26]
Holger: ACGT contains concepts for clinical trials and genomic research
... concepts/relationships encoded in the ontology are represented in
Trial of Principle (TOP Trial) forms
Discussion on Logistics for loading and using Patient Data
ericP: we will discuss the last agenda item
... we will NOT discuss the last agenda item :-)
canceled as Parsa isn't present.
Mappings if any between ACGT ontology and CDISC/HL7
<ericP> holger_stenzhor1: was hoping Christian could address this
Holger: Cris will probably be able to explain the mapping issue much
better. ACGT does not directly encode the mappings directly.
... ACGT partners (from Greece?) will be addressing the mapping issue
<ericP> ACTION: Holger to invite Chris to discuss Mappings if any
between ACGT ontology and CDISC/HL7 or to provide a narrative himself
[recorded in
[13]http://www.w3.org/2008/03/11-hcls-minutes.html#action01]
Helen: is ACGT.owl is the latest file?
<holger_stenzhor1> www.ifomis.org/acgt/1.0
Holger: yup its latest
<ericP> => [14]http://www.ifomis.org/acgt/1.0 ACGT ontology
overall mapping plan
Helen: we should think how the inclusion/exclusion criteria is not
buried under the SPARQL query
... these criteria are part of the trials protocol itself
ericP: not sure if there are other ways of encoding the
inclusion/exclusion apart from it being a part of the query
Summary of Action Items
[NEW] ACTION: Holger to invite Chris to discuss Mappings if any between
ACGT ontology and CDISC/HL7 or to provide a narrative himself [recorded
in [15]http://www.w3.org/2008/03/11-hcls-minutes.html#action01]
[End of minutes]
__________________________________________________________________
Minutes formatted by David Booth's [16]scribe.perl version 1.133
([17]CVS log)
$Date: 2008/03/11 20:46:41 $
References
1. http://www.w3.org/
2. http://www.w3.org/2008/03/11-hcls-irc
3. http://www.w3.org/mid/DBA3C02EAD0DC14BBB667C345EE2D12401E2B3CE@PHSXMB20.partners.org
4. http://www.w3.org/2008/03/11-hcls-minutes#agenda
5. http://www.w3.org/2008/03/11-hcls-minutes#item01
6. http://www.w3.org/2008/03/11-hcls-minutes#item02
7. http://www.w3.org/2008/03/11-hcls-minutes#item03
8. http://www.w3.org/2008/03/11-hcls-minutes#item04
9. http://www.w3.org/2008/03/11-hcls-minutes#ActionSummary
10. http://www.ifomis.org/acgt/coi-presentation.pdf
11. http://www.ifomis.org/acgt/coi-presentation.ppt
12. http://www.ifomis.org/acgt/coi-presentation.ppt
13. http://www.w3.org/2008/03/11-hcls-minutes.html#action01
14. http://www.ifomis.org/acgt/1.0
15. http://www.w3.org/2008/03/11-hcls-minutes.html#action01
16. http://dev.w3.org/cvsweb/~checkout~/2002/scribe/scribedoc.htm
17. http://dev.w3.org/cvsweb/2002/scribe/
--
-eric
office: +1.617.258.5741 32-G528, MIT, Cambridge, MA 02144 USA
mobile: +1.617.599.3509
(eric@w3.org)
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Received on Tuesday, 11 March 2008 21:34:34 UTC