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24 Mar 2011

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Contents


scribenick Bob

Michel: OSCAR presentation

Bosse: Very interesting, more and more as he talked about features
... interesting to see a long history in the project
... not developed toward research interests

Michel: Interesting re charts, lots of numbers in red on the chart
... goes to show that HC pros are accustomed to a very busy interface
... oscar hones in on what they want
... also put in pictures and videos, as of patient trying to stand up

Bosse: Do they track lifestyle info for research?

Michel: Not sure

Bosse: This is a need in research: to know about normal life situation before disease

Michel: OSCAR is growing and is open source?

OSCAR *is* open source.

Matthias and Elgar have seen the slides

Trish: Interesting as it went on, seem open
... have sent an email to them

Michel: Doubt that patient data are available; onus would be on us to add functionality
... might be able to test our stuff w. participating institutions

Michel's brother is lead developer on OSCAR

Trish: Seems like a good opp, given the nature of groups and resources

Michel: We could write grant proposal to extend oscar

Trish: How do we take the next step; opp. to take TMO to something working in the real world

Michel: Don't quite want to commit right away on this.
... would like to get more vendors in to describe the lay of the land from their viewpoint.
... we don't want to re-write a core in order to do something interesting
... oscar, etc, already deployed where we can evaluate our contribution
... Would like to survey different softwares; write proposals to extend
... OSCAR terminology, it looked as though user had to type in specific codes
... auto-complete might be good there
... uses LOINC, SNOMED, ICD. None of the physicians want to type in codes
... autocomplete functionality w semantic

Trish: These would be easy ways to start using terminology in a more user-friendly way

OSCAR based on Indivo

Michel: This is good, given ericP's work
... depends on their stuff being encoded. Indivo does not require that everything be encoded.
... Indivo would be a connection point
... Who should we get next?

Trish: Human Studies Database

<michel> http://hsdbwiki.org/index.php/HSDB_Wiki

Trish: AMIA, may have interaction w. Larry Hunter's group

Scott: OSCAR prime candidate for RDF-ification
... brings a lot to the table, but not immediately semantifiable(?) perhaps. Needs more work
... David would be interested in accessing RDB via SPARQL

Indivo would be the place to plug in

Michel: Also semantic auto-completion
... HSDB based on Ontology of Clinical Research
... already using ontologies, so interesting

Trish: Have other cats to herd.

Scott will contact HSDB

Trish: i2b2 has hives, cells; There is a patient component in there.
... Redcap

<michel> http://www.bmhi.umn.edu/ctsi_bmi/initiatives/redcap/home.html

<whetzel> http://www.project-redcap.org/

<michel> http://www.bmhi.umn.edu/ctsi_bmi/initiatives/portal/home.html

Scott: We have looked at i2b2 in recent months. Visited IO Informatics last week
... bumped into Xavier(?) from Oracle. Maybe get Oracle drivers for SWOjects, thru IO

Trish: Shawn Murphy from i2b2

<michel> http://lcs.mgh.harvard.edu/projects/rpdr.html

Michel: Research Patient Data Registry

<michel> http://www.partners.org/rescomputing/template.asp?pageId=99&ArticleTitle=RPDR&level1ID=9&tocID=9&articleSubPage=true

ericP: Children's, but grant didn't come through

Scott: Xavier Lopez from Oracle

ericP: Dan has access to de-id, Children's has access to non-de-id
... ODBC always painful.
... Children's guy might have leads for funding or data. They are working on SHRINE pediatric, 50 sites

Scott: SHRINE looks like a tremendous resource

ericP: Could try to talk to shrine/i2b2

Michel: Paper opportunity, invitation from J. Pharmacogenomics

<mscottm> yes, pharmacogenomics

<whetzel> Has there been any follow-up with the EMERGE or Marshfield Clinic?

Michel: approaches to mark-up. We can write review of existing approaches DB --> formal representation
... take the best, leave behind the worst, say this is how we would do it.
... representaton + queries, using TMO
... need more review of other HC systems, how they do this

<michel> https://docs.google.com/present/edit?id=0AYy0zfdRviKsZGM5cWM1OXRfMTAwZzlycmJjZmI&hl=en&authkey=CKXAsvMI

Michel: want to look at OCR and OGMS

<mscottm> Trish: Good question. Marshfield was in motion last year. I don't recall anything about EMERGE.

Michel: Chime CPR Clincial Patient Record
... look at resources like OMIM

Bosse: Can do some on this

<mscottm> Bob - that was Matthias, not Bosse. :)

ericP: Have a landscape of patient encounter, tests, demographics; to a map that displays all of this.

Matthias: Can do some of this (not Bosse :-)

ericP: "Landscape browser" Example Indivo, CPR have similar concepts
... not in same universe model, but they do talk about the same stuff

<michel> section about mappings between different approaches

<michel> analogous structures

ericP: needs to be browsable

Michel: Registry of these kinds of mappings?

ericP: Not sure how far down the machine this should go
... allow a person to navigate. Would be awesome to provide semantic functionality.

Michel: Can be more conceptual, need not be fully operational
... can leave real mappings for follow-on paper
... focus can be around pharmacogenomics

ericP: Neither Indivo nor i2b have structures around this
... XML encourages people to get stuck in microparsing
... so RDF would be good here

Michel and Scott will start a paper framework

ericP: Ben Adida would be an excellent resource for this

Summary of Action Items

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