- From: <helen.chen@agfa.com>
- Date: Fri, 8 Sep 2006 17:12:37 -0400
- To: DAN.RUSSLER@ORACLE.COM
- Cc: public-semweb-lifesci@w3.org
- Message-ID: <OF8581CA1E.9F72B4B2-ON852571D5.0064B055-852571E3.00748283@agfa.com>
Hi, Dan
Given the detailed description of HL7 RIM and Domain Vocabulary, it is
quite tempting to generate the RIM ontology directly from some kind of
conversion scheme between UML and RDF/OWL , preferably some automated
tools/scripts.
I assume you must aware some similar efforts in generating RIM ontology.
One such ontology is made by Bhavna Orgun
(http://www.ics.mq.edu.au/~borgun/Software.html).
However, when examining closely the fundamental theories behind UML (OO)
and RDF/OWL (Model theory), you will find that the direct translation from
UML to RDF/OWL is not so straightforward as it seems. For example:
1. Mapping UML classes to RDF classes
UML class hierarchy is shown in class diagram. In a typical OO fashion,
if class B is the subClass of class A, all attributes of A will be
"inherited" by B. Furthermore, class B often will have additional
attributes that impose further restrictions on B. RIM class diagram only
shows those subclasses that have additional attributes compare to their
super-classes. Translation of RIM class diagram into RDF/OWL classes and
subclasses can be quite misleading. I find a more adequate
categorization is the class type list in the domain vocabulary, for
example, for classification of the act class, I have used the domain
ActClass ("A code specifying the major type of Act that this act-instance
represents" ).
2. Mapping UML attributes RDF properties
In OO, all attributes of a class will be inherited by its subclasses. In
RDF/OWL, there is not such "inheritance", such that
{?A ?P ?X. ?B rdfs:subClassOf ?A} => {?B ?P ?X}
(the above rule does not exist in OWL semantics)
Some semantics in OO inheritance can be mapped to RDF/OWL using
restrictions, but great care must be applied not to over-restrict your
ontology. Maybe we can look at some details during one of our Tcon.
3. Mapping "relationship classes" to RDF property
There are "relationship classes" in RIM, such as ActRelationship class,
RoleLink class. These classes are used to state relationship between
two acts, or two roles. In OO, they are designed as classes, and can be
easily mapped to the ER model for database, in order to accommodate
one-to-many relationship. In RDF/OWL, it is natural to model them as
properties, and their types as sub-properties. This is how they are
modelled in our RIM ontology mentioned in my previous email.
These are a few points I have encountered during my exercise of
constructing RIM Ontology.
I am copying HCLS list on this subject, hope to hear from other people's
experience in "converting RIM ontology from UML" or from UML->OWL in other
domains. Many domain knowledge is captured in UML type of models and
diagrams. If we can find a good way to convert these domain knowledge in
UML to OWL, I believe it would offer some value for Informatics as
general.
Kind regards.
Helen
http://www.agfa.com/w3c/hchen
DAN.RUSSLER@ORACLE.COM
08/25/2006 12:34 PM
To
Helen Chen/AMPJB/AGFA@AGFA
cc
Subject
RE: invitation for next ACPP call
Thanks for the welcome Helen. I hope to learn a lot and perhaps, at least,
contribute a little.
I've been exploring transforms from UML to RDF and have found some
resources. Do you have anything written on mappings or transforms from the
RIM to RDF expressions?
Dan Russler, M.D.
VP Clinical Informatics
Oracle
(VM) 404-439-5983
--- Original Message ---
Hi, Dan and the group
My sincere apology to all with regard to this week's ACPP Tcon. I was on
vacation the whole week and did plan to attend the Tcon on Tuesday. Due
to a health problem of my father, I ended up only getting back to my
computer this morning.
Welcome, Dan, to this group. It is so good to hear your interest in
working on HL7 RIM ontology. We have the same intention and worked on a
draft which you can find at ACPP group's attachments section:
http://esw.w3.org/topic/HCLS/ACPPTaskForce?action=AttachFile
You can download the RIMV3OWL.zip file which contains all files of RIM
ontology in protege. I had some design consideration and choices made
during the design and implementation of this ontology and discussed them
once with Chimizie. I am very much looking forward to hearing your
comments and working together.
I hope to talk with all of you on our next Tcon at 3pm, Tuesday, August
29.
Kind regards.
Helen
http://www.agfa.com/w3c/hchen
"Davide Zaccagnini" <davide@landcglobal.com>
08/22/2006 08:27 AM
To
<DAN.RUSSLER@ORACLE.COM>, <ogbujic@bio.ri.ccf.org>,
<thongsermeier@partners.org>, Helen Chen/AMPJB/AGFA@AGFA,
<Alfredo.Morales@cerebra.com>, "'Brandt, Sam \(MED US\)'"
<sam.brandt@siemens.com>
cc
Subject
RE: invitation for next ACPP call
Dan,
Here are the details
SW_HCLS(ACPP)
SW Life Sciences IG
Tuesdays
3:00pm-4:15pm
+1.617.761.6200, conference code 2277 ("ACPP")
Regards
Davide
-----Original Message-----
From: DAN.RUSSLER@ORACLE.COM [mailto:DAN.RUSSLER@ORACLE.COM]
Sent: Monday, August 21, 2006 6:18 PM
To: ogbujic@bio.ri.ccf.org; thongsermeier@partners.org;
helen.chen@agfa.com;
Alfredo.Morales@cerebra.com; davide@landcglobal.com; Brandt, Sam (MED US)
Subject: Re: invitation for next ACPP call
Thanks!...I'm looking forward to working with this group.
Can someone send call-in information?
Dan Russler, M.D.
VP Clinical Informatics
Oracle
(VM) 404-439-5983
--- Original Message ---
>
> I second that!
> Welcome Dan!!
>
> -Sam
>
>
> -----Original Message-----
> From: Hongsermeier, Tonya M.,M.D. <THONGSERMEIER@PARTNERS.ORG>
> To: Davide Zaccagnini <davide@landcglobal.com>; helen.chen@agfa.com
> <helen.chen@agfa.com>; DAN.RUSSLER@ORACLE.COM <DAN.RUSSLER@ORACLE.COM>;
> Chimezie Ogbuji <ogbujic@bio.ri.ccf.org>; Alfredo Morales
> <Alfredo.Morales@cerebra.com>; Brandt, Sam (MED US)
> Sent: Mon Aug 21 17:54:34 2006
> Subject: RE: invitation for next ACPP call
>
> Davide
>
> This is fantastic, Dan, welcome to the team
>
> Best
>
> Tonya
>
>
>
> Tonya Hongsermeier, MD, MBA
> Corporate Manager,
> Clinical Knowledge Management and Decision Support
>
> Partners HealthCare System
> Clinical Informatics Research and Development
> 93 Worcester Street, PO Box 81905
> Wellesley, MA 02481
> P: 781.416.9219 Mobile: 617.717.8711
> Fax: 781.416.8912
>
> ________________________________
>
> From: Davide Zaccagnini [mailto:davide@landcglobal.com]
> Sent: Friday, August 18, 2006 3:00 PM
> To: helen.chen@agfa.com; DAN.RUSSLER@ORACLE.COM; Hongsermeier,
> Tonya M.,M.D.; Chimezie Ogbuji; Alfredo Morales; sam.brandt@siemens.com
> Subject: invitation for next ACPP call
>
>
>
> Hi All,
>
>
>
> I would like to invite to our next ACPP call Dan Russler, VP
> of clinical informatics at Oracle. Dan is interested in
> approaches to map HL7 RIM to RDF and in modeling clinical
> protocols with semantic technologies.
>
>
>
> Dan,
>
> here is the link to our wiki page where we can start looking
> at the work we have done so far
http://esw.w3.org/topic/HCLS/ACPPTaskForce#preview
>
>
>
> Are we ok for next Tuesday at 3pm?
>
>
>
> Regards
>
>
>
> Davide
>
>
>
>
>
>
>
> Davide Zaccagnini, MD, MS
>
> Product Manager, Medical Informatician
>
> + 1 617 864 1031 (Office)
>
> + 1 617 642 7472 (Cell)
>
> davide@landcglobal.com
>
> www.landcglobal.com
>
>
>
>
>
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Received on Friday, 25 August 2006 23:02:51 UTC