16:01:32 <RRSAgent> RRSAgent has joined #hcls2
16:01:32 <RRSAgent> logging to http://www.w3.org/2011/03/24-hcls2-irc
16:01:37 <michel> zakim, this is tmo
16:01:37 <Zakim> ok, michel; that matches SW_HCLS(TMO)11:00AM
16:01:56 <Zakim> +bbalsa
16:03:20 <Zakim> +??P10
16:03:37 <matthias_samwald> zakim, ??P10 is matthias_samwald
16:03:37 <Zakim> +matthias_samwald; got it
16:03:48 <Bob> scribenick Bob
16:05:58 <Zakim> + +1.650.331.aaaa
16:06:00 <Zakim> +??P2
16:06:10 <michel> zakim, ??P2 is michel
16:06:10 <Zakim> +michel; got it
16:06:28 <michel> zakim, +1.650.331.aaaa is trish
16:06:28 <Zakim> +trish; got it
16:06:31 <whetzel> whetzel has joined #hcls2
16:08:00 <Bob> Michel: OSCAR presentation
16:08:16 <Bob> Bosse: Very interesting, more and more as he talked about features
16:08:34 <Bob> ... interesting to see a long history in the project
16:08:36 <Zakim> + +1.781.431.aabb
16:08:57 <Bob> ... not developed toward research interests
16:09:37 <Bob> Michel: Interesting re charts, lots of numbers in red on the chart
16:09:59 <Bob> ... goes to show that HC pros are accustomed to a very busy interface
16:10:14 <Bob> ... oscar hones in on what they want
16:10:36 <Bob> ... also put in pictures and videos, as of patient trying to stand up
16:10:59 <Bob> Bosse: Do they track lifestyle info for research?
16:11:04 <Bob> Michel: Not sure
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16:11:48 <Bob> Bosse: This is a need in research: to know about normal life situation before disease
16:13:37 <Bob> Michel: OSCAR is growing and is open source?
16:13:51 <Bob> OSCAR *is* open source.
16:14:17 <Bob> Matthias and Elgar have seen the slides
16:14:58 <Bob> Trish: Interesting as it went on, seem open
16:15:08 <Bob> ... have sent an email to them
16:15:57 <Bob> Michel: Doubt that patient data are available; onus would be on us to add functionality
16:16:21 <Bob> ... might be able to test our stuff w. participating institutions
16:16:43 <Bob> Michel's brother is lead developer on OSCAR
16:17:11 <Bob> Trish: Seems like a good opp, given the nature of groups and resources
16:17:57 <Bob> Michel: We could write grant proposal to extend oscar
16:18:37 <Bob> Trish: How do we take the next step; opp. to take TMO to something working in the real world
16:19:02 <Bob> Michel: Don't quite want to commit right away on this.
16:19:22 <Bob> ... would like to get more vendors in to describe the lay of the land from their viewpoint.
16:19:38 <Bob> ... we don't want to re-write a core in order to do something interesting
16:20:05 <Bob> ... oscar, etc, already deployed where we can evaluate our contribution
16:20:43 <Bob> ... Would like to survey different softwares; write proposals to extend
16:21:30 <Bob> ... OSCAR terminology, it looked as though user had to type in specific codes
16:22:01 <Bob> ... auto-complete might be good there
16:22:31 <Bob> ... uses LOINC, SNOMED, ICD. None of the physicians want to type in codes
16:22:53 <Bob> ... autocomplete functionality w semantic
16:23:27 <Bob> Trish: These would be easy ways to start using terminology in a more user-friendly way
16:24:16 <Bob> OSCAR based on Indivo
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16:24:45 <Bob> Michel: This is good, given ericP's work
16:25:12 <Bob> ... depends on their stuff being encoded. Indivo does not require that everything be encoded.
16:25:31 <Bob> ... Indivo would be a connection point
16:25:48 <Bob> Michel: Who should we get next?
16:26:14 <Bob> Trish: Human Studies Database
16:26:38 <michel> http://hsdbwiki.org/index.php/HSDB_Wiki
16:28:53 <Zakim> +mscottm
16:29:08 <Bob> Trish: AMIA, may have interaction w. Larry Hunter's group
16:30:03 <Bob> Scott: OSCAR prime candidate for RDF-ification
16:30:58 <Bob> ... brings a lot to the table, but not immediately semantifiable(?) perhaps. Needs more work
16:31:20 <Bob> ... David would be interested in accessing RDB via SPARQL
16:32:00 <Bob> Indivo would be the place to plug in
16:32:12 <Bob> Michel: Also semantic auto-completion
16:33:31 <Bob> ... HSDB based on Ontology of Clinical Research
16:34:02 <Bob> ... already using ontologies, so interesting
16:34:44 <Bob> Trish: Have other cats to herd.
16:35:25 <Bob> Scott will contact HSDB
16:36:11 <Bob> Trish: i2b2 has hives, cells; There is a patient component in there.
16:36:28 <Bob> ... Redcap
16:36:47 <michel> http://www.bmhi.umn.edu/ctsi_bmi/initiatives/redcap/home.html
16:38:02 <whetzel> http://www.project-redcap.org/
16:38:20 <michel> http://www.bmhi.umn.edu/ctsi_bmi/initiatives/portal/home.html
16:39:37 <Bob> Scott: We have looked at i2b2 in recent months. Visited IO Informatics last week
16:40:18 <Bob> ... bumped into Xavier(?) from Oracle. Maybe get Oracle drivers for SWOjects, thru IO
16:41:09 <Bob> Trish: Shawn Murphy from i2b2
16:41:25 <michel> http://lcs.mgh.harvard.edu/projects/rpdr.html
16:41:47 <Bob> Michel: Research Patient Data Registry
16:42:27 <michel> http://www.partners.org/rescomputing/template.asp?pageId=99&ArticleTitle=RPDR&level1ID=9&tocID=9&articleSubPage=true
16:42:46 <ericP> Zakim, please dial ericP-office
16:42:46 <Zakim> ok, ericP; the call is being made
16:42:48 <Zakim> +EricP
16:43:59 <Bob> ericP: Children's, but grant didn't come through
16:44:20 <Bob> Scott: Xavier Lopez from Oracle
16:45:02 <Bob> ericP: Dan has access to de-id, Children's has access to non-de-id
16:45:17 <Bob> ... ODBC always painful.
16:45:53 <Bob> ... Children's guy might have leads for funding or data. They are working on SHRINE pediatric, 50 sites
16:46:30 <Bob> Scott: SHRINE  looks like a tremendous resource
16:47:12 <Bob> ericP: Could try to talk to shrine/i2b2
16:48:34 <Bob> Michel: Paper opportunity, invitation from J. Pharmacogenomics
16:48:35 <mscottm> yes, pharmacogenomics
16:49:06 <whetzel> Has there been any follow-up with the EMERGE or Marshfield Clinic?
16:49:25 <Bob> ... approaches to mark-up. We can write review of existing approaches DB --> formal representation
16:49:48 <Bob> ... take the best, leave behind the worst, say this is how we would do it.
16:50:07 <Bob> ... representaton + queries, using TMO
16:50:46 <Bob> ... need more review of other HC systems, how they do this
16:51:01 <michel> https://docs.google.com/present/edit?id=0AYy0zfdRviKsZGM5cWM1OXRfMTAwZzlycmJjZmI&hl=en&authkey=CKXAsvMI
16:51:30 <Bob> ... want to look at OCR and OGMS
16:51:35 <mscottm> Trish: Good question. Marshfield was in motion last year. I don't recall anything about EMERGE.
16:51:52 <Bob> ... Chime CPR Clincial Patient Record
16:52:15 <ericP> q+ to talk about dreams of cartography
16:52:26 <Bob> ... look at resources like OMIM
16:53:00 <Bob> Bosse: Can do some on this
16:53:34 <mscottm> Bob - that was Matthias, not Bosse. :)
16:53:42 <Bob> ericP: Have a landscape of patient encounter, tests, demographics; to a map that displays all of this.
16:54:10 <Bob> Matthias: Can do some of this (not Bosse :-)
16:54:59 <Bob> ericP: "Landscape browser" Example Indivo, CPR have similar concepts
16:55:14 <Bob> ... not in same universe model, but they do talk about the same stuff
16:55:21 <michel> section about mappings between different approaches
16:55:28 <michel> analogous structures
16:56:33 <Bob> ... needs to be browsable
16:56:58 <Bob> Michel: Registry of these kinds of mappings?
16:57:16 <Bob> ericP: Not sure how far down the machine this should go
16:58:02 <Bob> ... allow a person to navigate. Would be awesome to provide semantic functionality.
16:58:24 <Bob> Michel: Can be more conceptual, need not be fully operational
16:58:41 <Bob> ... can leave real mappings for follow-on paper
16:59:21 <Bob> ... focus can be around pharmacogenomics
16:59:40 <Bob> ericP: Neither Indivo nor i2b have structures around this
17:00:24 <Bob> ... XML encourages people to get stuck in microparsing
17:00:34 <Bob> ... so RDF would be good here
17:02:37 <Bob> Michel and Scott will start a paper framework
17:03:06 <Bob> ericP: Ben Adida would be an excellent resource for this
17:05:41 <Zakim> -Bob_Powers
17:05:44 <Zakim> - +1.781.431.aabb
17:05:47 <Zakim> -bbalsa
17:05:49 <Zakim> -trish
17:05:52 <michel> rrsagent, draft minutes
17:05:52 <RRSAgent> I have made the request to generate http://www.w3.org/2011/03/24-hcls2-minutes.html michel
17:05:59 <michel> rrsagent, make log world-visible
17:11:24 <Zakim> -matthias_samwald
17:30:44 <Zakim> -michel
17:30:46 <Zakim> -mscottm
17:30:46 <Zakim> -EricP
17:30:46 <Zakim> SW_HCLS(TMO)11:00AM has ended
17:30:48 <Zakim> Attendees were Bob_Powers, bbalsa, matthias_samwald, michel, trish, +1.781.431.aabb, mscottm, EricP
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