00:01:16 <matthias_samwald> matthias_samwald has joined #hcls
16:01:11 <RRSAgent> RRSAgent has joined #hcls
16:01:11 <RRSAgent> logging to http://www.w3.org/2011/02/03-hcls-irc
16:01:41 <matthias_samwald> matthias_samwald has joined #hcls
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16:02:12 <mscottm> Zakim, who is here?
16:02:31 <Zakim> sorry, mscottm, I don't know what conference this is
16:02:42 <michel> zakim, this is hcls
16:02:45 <Zakim> On IRC I see Joanne, michel, matthias_samwald, RRSAgent, Zakim, mscottm, bobP, egonw__, ericP
16:02:53 <Zakim> ok, michel; that matches SW_HCLS()11:00AM
16:02:55 <Zakim> +[IPcaller.a]
16:02:59 <mscottm> Zakim, this is #hcls
16:03:04 <mscottm> Zakim, this is hcls
16:03:09 <Zakim> sorry, mscottm, I do not see a conference named '#hcls' in progress or scheduled at this time
16:03:18 <Zakim> mscottm, this was already SW_HCLS()11:00AM
16:03:21 <Zakim> ok, mscottm; that matches SW_HCLS()11:00AM
16:03:26 <mscottm> Zakim, who is here?
16:03:29 <Zakim> On the phone I see Bob_Powers, +1.610.651.aaaa, +1.518.276.aabb, +20416aacc, [IPcaller], [IPcaller.a]
16:03:35 <Zakim> On IRC I see Joanne, michel, matthias_samwald, RRSAgent, Zakim, mscottm, bobP, egonw__, ericP
16:04:59 <Susie> Susie has joined #hcls
16:08:41 <bobP> Scott: TMO summary
16:08:43 <epichler> epichler has joined #HCLS
16:09:01 <bobP> Michel: Finishing up the final revisions for paper
16:09:28 <mscottm> Joanne is "herding all the cats" - nice :)
16:09:35 <bobP> ... draft ready today, submission early next week
16:09:56 <Zakim> +EricP
16:10:08 <bobP> ... then want to look at specific tasks: SNPs and genetic variation
16:10:41 <bobP> ... looking at genetic testing, alleles and significance
16:10:54 <bobP> ... Matthias organizing paper around this
16:11:22 <bobP> ... then we want to develop more semantically interlinked clinical records
16:12:05 <bobP> ... reaching out to see if others have places to incorporate semweb
16:12:38 <Zakim> + +1.781.431.aadd
16:12:53 <bobP> Scott: We have an inviation for a special issue; how to RDFize SNP identifiers and connect to patient data
16:14:01 <bobP> ... also TMO, the podium presentation was accepted at TBI
16:14:24 <bobP> Joanne: Conference is March 7-9
16:14:52 <ericP> per inviting EHR systems, Ben Adida of Indivo is already interested in expressing their EHRs in RDF. I2B2 folks still more skeptical
16:15:55 <bobP> Scott: Recently ran across person in Harland's(?) group
16:17:09 <bobP> Scott: Task force is TM or TMO?  Recently blogged about the task forces.
16:17:39 <mscottm> Didn't actually blog about the task forces yet http://www.w3.org/blog/hcls
16:18:14 <bobP> Susie: Make sure that messaging is well described going forward.
16:18:43 <bobP> ... TMO, not just focussed on ontology any more
16:20:35 <Zakim> -EricP
16:21:02 <bobP> Scott: Terminology task force: Picking up again
16:21:05 <Zakim> +EricP
16:21:38 <bobP> ... trying to talk about clinical reports, in context of breast cancer
16:22:03 <bobP> ... having trouble getting matched records about same patient
16:22:38 <bobP> ... but we've gotten some good data, now looking at how to RDFize
16:23:01 <bobP> ... triple store is coming soon
16:23:02 <Zakim> -[IPcaller.a]
16:23:37 <matthias_samwald1> matthias_samwald1 has joined #hcls
16:23:41 <bobP> ... complicating factor is that hospitals are just now starting to put records on-line
16:24:16 <bobP> ... situation is still settling as to contents
16:24:43 <bobP> ... US radiology systems are isolated, not normalized
16:25:22 <bobP> Joanne: Would like to see more Terminology-TMO cooperation
16:25:42 <bobP> ... can we combine triple stores?
16:26:15 <Zakim> +[IPcaller.a]
16:26:19 <matthias_samwald> matthias_samwald has joined #hcls
16:26:26 <matthias_samwald> (just dialed in again)
16:26:36 <bobP> Scott: Focussed now on breast cancer in Terminology
16:27:00 <bobP> ... we could consider how to work w. i2b2, of interest to everybody
16:27:03 <ericP> q+ to propose that Tim Lebo continue for a while then sync
16:27:34 <bobP> ericP: Tim Lebo working on EHR expression
16:30:25 <bobP> Susie: i2b2 has ontology hive, is a navigable tree
16:31:03 <bobP> ericP: They are talking about hierarchy of terms; provide tree-space for finding concepts
16:31:20 <bobP> ... but no real graph
16:32:12 <bobP> Susie: i2b2 has talked about integrating actual ontologies
16:33:46 <bobP> ericP: i2b2 may be using OWL in the snomed-mapping sense
16:36:56 <bobP> ericP: Integrating TMO w Terminology: Tim Lebo working on EHR modelling in EHR
16:37:17 <mscottm> ACTION: Scott gives sample RDF to Tim to put in Indivo
16:37:20 <bobP> ... give Tim what to express
16:38:29 <bobP> Scott: LODD, want an article that summarizes best practices
16:38:54 <bobP> ... Elgar made a work-flow diagram
16:39:10 <bobP> ... two main use cases: relational and XML
16:39:47 <bobP> ... Indivo XML, explaining how it works, fallback position
16:40:41 <bobP> Joanne: RPI is giving a hands-on tutorial at CSHALS
16:41:16 <bobP> ... LODD and RPI group should review tutorial
16:42:24 <bobP> ... outline for tutorial is on the CSHALS site
16:43:59 <bobP> Scott: LODD contents is mostly on the wiki
16:45:11 <bobP> Scott: Where does following your nose w. cool URIs lead?
16:47:21 <bobP> ... Ex, when you have data where URIs don't resolve, this has always been one of the foo-bar problems
16:47:53 <bobP> ... extra effort to produce resolvable URIs, then this is where there will be gaps
16:48:16 <bobP> ... so think of federated systems as a stop-gap
16:48:28 <bobP> ... on the way to deep semantic views
16:49:28 <bobP> ... create semweb with federated views, even if URIs don't resolve by themselves
16:50:29 <bobP> Susie: Focus of paper should be around helping people use the data
16:50:58 <bobP> ... but, when to federate is an interesting topic
16:52:37 <bobP> Scott: BioRDF is developing nicely, sign-on from interested parties
16:53:08 <bobP> ... NIST will tell us about microarray requirements
16:54:07 <bobP> Joanne: We are covering microarray in the tutorial
16:54:37 <bobP> Scott: Attach gene lists to mage-tabs
16:55:06 <bobP> ... one of the steps, then we need an RDF analogue for gene lists; all has gotten started
16:56:00 <bobP> ... Gene Atlas group is finishing up some RDF
16:56:27 <bobP> ... hoping to hear from them about results, hopefully align all this
16:58:01 <bobP> Scott: There are some datasources that will roll in
17:00:25 <bobP> ... OPS Open Pharmacological Space
17:01:02 <bobP> ... such projects will create some data, have written on the blog about this
17:01:51 <Zakim> -[IPcaller.a]
17:02:01 <Zakim> - +1.610.651.aaaa
17:02:03 <Zakim> -[IPcaller]
17:02:05 <Zakim> -Bob_Powers
17:02:07 <Zakim> - +1.518.276.aabb
17:02:09 <Zakim> - +20416aacc
17:02:19 <Zakim> -EricP
17:02:23 <Zakim> - +1.781.431.aadd
17:02:25 <Zakim> SW_HCLS()11:00AM has ended
17:02:29 <Zakim> Attendees were Bob_Powers, +1.610.651.aaaa, +1.518.276.aabb, +20416aacc, [IPcaller], EricP, +1.781.431.aadd
17:02:36 <mscottm>   RRSAgent, please draft minutes
17:02:36 <RRSAgent> I have made the request to generate http://www.w3.org/2011/02/03-hcls-minutes.html mscottm
17:03:25 <mscottm> s/NIF/NIST/
17:03:29 <mscottm>   RRSAgent, please draft minutes
17:03:29 <RRSAgent> I have made the request to generate http://www.w3.org/2011/02/03-hcls-minutes.html mscottm
17:03:33 <mscottm>   RRSAgent, please make log world-visible
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