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OpenOntologyRepository: Metadata Workshop-V - Tue 2012_01_17

Topic: OOR Metadata Workshop-V: Crosswalk between OMV & CTS2, and other relevant work by the NIH/NCI-ORWG

Session Chair: MichaelGruninger (University of Toronto)

Panelists from NIH/NCI ORWG:

  • HaroldSolbrig (Mayo Clinic)
  • SherriDeCoronado (NCI/NIH)
  • BrianDavis (3rd Millennium / Booz Allen Hamilton)


Conference Call Details

  • Date: Tuesday, 17-Jan-2012
  • Start Time: 8:30am PST / 11:30am EST / 5:30pm CET / 16:30 UTC
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Topic: OOR Metadata Workshop-V: Crosswalk between OMV & CTS2, and other relevant work by the NIH/NCI-ORWG

Folks from the NIH/NCI-ORWG team will be presenting results from their crosswalk between OMV and CTS2 exercise, as well as other pertinent work relating to metadata.

In particular, see ...

HaroldSolbrig's recent mapping of OMV to CTS2; where the results can be found at: Harold referred to an analysis Stuart Turner had done examining whether RxNorm (as specific instance of a terminology) actually has the metadata as outlined by OMV and that analysis is at:

After the presentation from the ORWG team, we will have an open discussion to compare notes and insights on various aspects of metadata as related to their use in ontology repositories.

SherriDeCoronado has mapped NCBO to OMV to OMV+ (the ontology representation working group's (ORWG's) ad hoc, temporary name for the version/extension to OMV), which can be found at:


Agenda & Proceedings

1. Meeting called to order ... opening, participants' self-introductions. (~10 min.)

2. introduction of the panel - chair: Michael Grüninger (~5 min.)

3. Presentation of the subject NIH/NCI-ORWG work - Harold Solbrig (~30 min.) ... [ slides ]

4. Additional remarks from the rest of the panel - SherriDeCoronado & Brian Davis (10~15 min.)

5. Q & A and Open discussion (~30 min.) ... (ref. process above)

6. Wrap-up: Announcements and Follow-up actions (where applicable) - chair: Michael Grüninger

Transcript of the online chat during the session

see raw transcript here.

(for better clarity, the version below is a re-organized and lightly edited chat-transcript.)

Participants are welcome to make light edits to their own contributions as they see fit.

-- begin in-session chat-transcript --

Peter P. Yim: Welcome to the

OpenOntologyRepository: Metadata Workshop-V - Tue 2012_01_17

Topic: OOR Metadata Workshop-V: Crosswalk between OMV & CTS2,

and other relevant work by the NIH/NCI-ORWG

Session Chair: Michael Grüninger (University of Toronto)

Panelists from NIH/NCI ORWG: * Harold Solbrig (Mayo Clinic) * SherriDeCoronado (NCI/NIH) * Brian Davis

(3rd Millennium / Booz Allen Hamilton)

Session page:

Mute control: *7 to un-mute ... *6 to mute

Can't find Skype Dial pad? ... it's under the "Call" dropdown menu as "Show Dial pad"

. == Proceedings: == .

anonymous morphed into Harold Solbrig

anonymous morphed into LiamDGray

anonymous morphed into Tom Tinsley

anonymous morphed into Rick Kiefer

MyCoyne: How do I indicate other people in the same room with me?

AmandaVizedom1 morphed into Amanda Vizedom

anonymous morphed into Gilberto Fragoso

anonymous morphed into Sherri de Coronado

anonymous2 morphed into Troy Bleeker (Mayo)

anonymous1 morphed into Dale Suesse

anonymous morphed into James Odell

Rick Kiefer: Harold is unable to connect to vpn. Please reference this copy of the slides -

anonymous morphed into Dean Allemang

Michael Grüninger: Note that we are now on slide 21 (not 26 as Harold just said)

Peter P. Yim: @MyCoyne - please post (on this chat space) the names of people who are with you now, if

you please - I'll capture that into the attendees roster later.

James Odell: OK

Dean Allemang: Darn! My call just dropped. I was interested in understanding how CTS2 versions works

with OWL2 versioning. The call dropped while he was explaining this.

Peter P. Yim: @Dean - hope you can call back in

Peter P. Yim: on slide#54 now

Peter P. Yim: on slide#55 [9:31am PST]

Dean Allemang: I made it back in a minute later, but that was too late for this discussion

Peter P. Yim: @Dean - we'll have some time for Q&A and open discussion

Dean Allemang: that's right

Dean Allemang: and those versions are all related together according to the OWL2 standard?

Dean Allemang: that's right

Dean Allemang: even in production, that can be a problem

Dean Allemang: thanks

Todd Schneider: A question: How did use of REST help?

Harold Solbrig: @Todd - identifying the resources, assigning identity, determining which

characteristics are key vs. accidental was one aspect.

Harold Solbrig: The second was the removal of dependencies - our earlier models had containment models

Todd Schneider: Harold, thank you.

Harold Solbrig: COde systems "contained" definitions. REST made us refactor into "Class describedInVersion"

Harold Solbrig: Especially important as in the Semantic Web world, Class to ontologyVersion is n..m

Todd Schneider: Harold, could you remind me of the definition of 'code system'?

MyCoyne: Where do I get Sherri's presentation, please?

Harold Solbrig: Code set, classification system, thesaurus, ontology, glossary

Mike Bennett: With terminology you've also got the whole ISO 1087 / SBVR world of terms.

Harold Solbrig: @Todd - some people use "Ontology" to represent all of those things, but then you

need a different term for small "ontology"

Todd Schneider: Harold, got it. Short memory span.

Peter P. Yim: @MyCoyne - Sherri doesn't have slides, she is introducing the ORWG and their work - see:

Todd Schneider: Some people don't understand many things.

Todd Schneider: Harold, how would you see CTS2 fitting into the OOR architecture?

Harold Solbrig: The number of things that I don't understand is infinite.

Todd Schneider: Harold, you have a start - a rough metric

Harold Solbrig: CTS2 could serve as one of the REST (and, perhaps SOAP) API's to allow federation and sharing.

Harold Solbrig: The advantage being that you don't necessarily HAVE to absorb everything.

Harold Solbrig: You can reference other catalogs elsewhere on the net.

Todd Schneider: Ken, do you see using something like CTS2 as part of the workflow engine?

Todd Schneider: A goal of the OOR architecture is provide a specification (in the sense that Harold described).

Todd Schneider: Harold, did I understand you correctly that the CTS2 specification is not publicly

available yet?

Harold Solbrig: @Todd - public. Available from the OMG site or the CTS2 URL I sent. Again, a bit

opaque and being clarified...

DeborahMacPherson: Great Presentation! Got a lot from it - thanks - need to take off for another

conference call.

Ken Baclawski: @Todd - it is not part of the workflow engine. The workflow engine is configurable so

it should be possible to specify CTS2 as one possible workflow.

Todd Schneider: We should consider the use of CTS2 in the OOR for terminology mediation.

Todd Schneider: Harold, thank you for an excellent presentation. Have to go.

Harold Solbrig: Thanks. I'm going to have to go in about 2 minutes as well.

Peter P. Yim: great session, thanks everyone!

Mike Bennett: Thanks all!

Peter P. Yim: -- session ended 10:06am PST --

-- end of in-session chat-transcript --

6.1 Any Other Business:

6.2 Action items:

6.3 Schedule Next Meeting & Adjourn:

  • Next Meeting:
    • this coming Thu 2012.01.19 - Ontology Summit 2012 session-02: "Ontology for Big Systems: What's In Scope" - see: ConferenceCall_2012_01_19
    • no OOR meeting on Tue 2012.01.24
    • then the "OOR Architecture & API Workshop-X" on Tue 2012.01.31
    • after that, we will be having our next regular OOR-team meeting on Tue 2012.02.07
  • Call adjourned at: 10:06 am PST


notes taken by: Peter P. Yim / 2012.01.17-10:27am PST

All participants, please review and edit to enhance accuracy and granularity of the documented proceedings.


  • the OOR-IPR mini-series:
    • 2010_09_09 - Thursday: Joint OOR-Ontolog-NCBO-CC-IAOA-OASIS Panel Discussion - "IPR issues in Ontology and the OOR" session-1: an exposition on relevant IPR regimes - Keynote speaker: George Strawn - Chair: Peter P. Yim - Panelists: JamieClark, John Wilbanks, Bruce Perens - ConferenceCall_2010_09_09
    • 2010_09_16 - Thursday: Joint OOR-Ontolog-NCBO-CC-IAOA-OASIS Panel Discussion - "IPR issues in Ontology and the OOR" session-2: what are the IPR issues relating to open ontology repositories (and ontologies in general)? - Chair: Mark Musen - Panelists: Cameron Ross, Alan Rector, John F. Sowa, Bruce Perens, John Wilbanks, Peter P. Yim - ConferenceCall_2010_09_16
    • 2010_09_30 - Thursday: Joint OOR-Ontolog-NCBO-CC-IAOA-OASIS Panel Discussion - "IPR issues in Ontology and the OOR" session-3: discussion and consensus on licensing arrangements for the OOR Initiative, and positions we might take on related IPR issues - chair: Leo Obrst - Panelists: Peter P. Yim, Mike Dean, Bruce Perens, JamieClark - ConferenceCall_2010_09_30
  • the Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series:
    • 2011_10_20 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-1: Introducing the ISO NP 17347 "Ontology Integration and Interoperability (OntoIOp)" Standardization Effort - Co-chairs: John Bateman & Michael Grüninger - ConferenceCall_2011_10_20
    • 2011_11_03 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-2: Invited Speaker: Elisa Kendall on "Ontology-Related Metadata Standards" - Co-chairs: Michael Grüninger & John Bateman - ConferenceCall_2011_11_03
    • 2011_12_15 - Thursday: Joint IAOA-OOR-Ontolog "Ontologies and Standards" mini-series session-3: "ISO/IEC 24707 Common Logic and IKL" - Co-chairs: Michael Grüninger & John Bateman - ConferenceCall_2011_12_15