14:28:38 <RRSAgent> RRSAgent has joined #BioRDF
14:28:38 <RRSAgent> logging to http://www.w3.org/2008/09/22-BioRDF-irc
14:28:53 <kei> Zakim, this will be BioRDF
14:28:53 <Zakim> ok, kei; I see SW_HCLS()11:00AM scheduled to start in 32 minutes
14:29:18 <kei> agenda+ roll call and introduction [Kei]
14:29:30 <kei> agenda+ UMLS presentation [Olivier]
14:29:46 <kei> agenda+ BioPortal presentation [Benjamin]
14:30:00 <kei> agenda+ Q&A [All]
14:54:49 <Zakim> SW_HCLS()11:00AM has now started
14:54:56 <Zakim> +??P0
14:55:49 <Zakim> +Kei_Cheung
14:56:11 <kei> Zakim, this is BioRDF
14:56:11 <Zakim> kei, this was already SW_HCLS()11:00AM
14:56:12 <Zakim> ok, kei; that matches SW_HCLS()11:00AM
14:56:29 <kei> Zakim, take up next agendum
14:56:29 <Zakim> agendum 1. "roll call and introduction" taken up [from Kei]
14:57:47 <Zakim> +Olivier_Bodenreider
15:00:33 <matthias_samwald> matthias_samwald has joined #biordf
15:01:03 <kei> matthias, are you on the phone?
15:01:46 <Zakim> + +1.781.662.aaaa
15:02:19 <Zakim> +??P14
15:02:29 <Susie> Susie has joined #biordf
15:02:45 <matthias_samwald> Zakim, ??P14 is matthias_samwald_w3c
15:02:49 <Zakim> +matthias_samwald_w3c; got it
15:04:42 <Zakim> + +1.617.949.aabb
15:05:28 <kei> scott, susie, kei, luis, matthias, olivier, benjamin ...
15:06:40 <Zakim> +TN
15:08:14 <Zakim> + +1.203.737.aacc
15:08:31 <matthias_samwald> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2008-09-22?action=AttachFile
15:08:31 <kei> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup
15:11:15 <bdai> bdai has joined #BioRDF
15:13:42 <kei> zakim, take up next agendum
15:13:42 <Zakim> agendum 2. "UMLS presentation" taken up [from Olivier]
15:14:09 <kei> olivier: high level presentation of umls
15:14:50 <kei> olivier: methathesaurus and semantic network
15:15:22 <kei> olivier: terminology integration system (UMLS)
15:15:41 <kei> olivier: UMLS has been developed in past 20 years
15:15:44 <Huajun> Huajun has joined #BioRDF
15:16:10 <kei> olivier: license: an agreement needs to be signed with NLM
15:16:51 <kei> olivier: IP of UMLS developers needs to be protected.
15:18:02 <kei> olivier: umls is mainly organized by concepts
15:19:16 <kei> olivier: 17 translations for MeSH
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15:20:29 <kei> olivier: umls consists of a set of relational db's
15:23:43 <kei> olivier: umls realized integration across namespaces
15:26:41 <kei> olivier: semantic network is fully curated by NLM
15:27:11 <kei> olivier: semantic labels are assigned to relationships in semantic network
15:36:28 <kei> olivier: no easy conversion between umls and smenatic web format
15:43:24 <kei> olivier: umls as a terminology integration system which is most relevant to semantic web
15:45:24 <kei> susie: identifer: which URI's to be used?
15:45:45 <kei> susie: likely NLM will assign global URI to its terms?
15:46:14 <kei> susie: URI-based identifiers are preferred by this IG?
15:46:49 <kei> olivier: easy mappings should be provided between different name spaces. Base URI's need to be in place.
15:47:27 <kei> susie: anything we can do to help NLM to move towards this global URI scheme?
15:47:50 <kei> olivier: RDF version of MESH can serve as a testbed?
15:49:52 <kei> scott: URI's (slide 8), Addison disease in multiple vocabularies?
15:50:54 <kei> olivier: unresolved problem -- uri assigned by the the 1st vocabulary 
15:51:27 <kei> olivier: use of a precedence list (for choosing the preferred term)
15:53:24 <kei> benjamin: chief software architect of NCBO
15:53:37 <kei> Zakim, take on next agendum
15:53:37 <Zakim> I don't understand 'take on next agendum', kei
15:53:47 <mscottm> missing the powerpoint - was a link put out in irc?
15:54:04 <kei> zakim, take up next agendum
15:54:04 <Zakim> agendum 3. "BioPortal presentation" taken up [from Benjamin]
15:54:11 <mscottm> just found - nevermind
15:54:31 <kei> benjamin: one stop shop for biomedical ontologies
15:55:38 <Zakim> -TN
15:55:41 <kei> bejamin: PURL in collaboration with Safari
15:55:55 <kei> benjamin: loose definition of ontologies is used
15:56:20 <kei> benjamin: tracking of history and different formats (e.g. obo, owl) are supported
15:56:56 <kei> benjamin: navigation view of concepts in ontology (see URL listed at the end of the slide)
15:58:56 <kei> benjamin: metadata associated with concetps are avaiable
16:00:18 <kei> benjamin: point-to-point mappings vs bulk mappings
16:00:39 <kei> benjamin: upload of bulk mappings is also possible
16:01:27 <kei> benjamin: how to decide which mappings to use? Provenance may help. For example filter by sources.
16:02:30 <kei> benjamin: equivalent mappings (different kinds of mappings)
16:03:16 <kei> benjamin: local forum for each ontology (community feedback)
16:05:56 <kei> benjamin: annotations of clinical trials. gov
16:07:42 <matthias_samwald> (sounds great!)
16:09:00 <kei> benjamin: netkernel for NCBO fabric
16:09:27 <kei> benjamin: rest services are available externally
16:11:13 <kei> benjamin: uri security gating (how this can be used to address the licensing issue)
16:13:10 <kei> benjamin: performance issue -- heuristic may be applied to improve performance
16:14:12 <kei> benjamin: bioportal -- available through rest services
16:15:28 <kei> benjamin: ncbo purl server (in collaboration with Zepheira -- headed by Eric Miller)
16:17:47 <Zakim> - +1.781.662.aaaa
16:18:16 <kei> scott: where is the bottleneck?
16:18:38 <kei> scott: purl pointing to UMLS?
16:20:04 <kei> kei: overlap of ontologies?
16:20:37 <kei> olivier: 5 ontologies: nci thesaurus, fma, gene ontologies, ...
16:21:16 <kei> benjamin: licensing issue is not trivial ...
16:22:18 <Zakim> - +1.203.737.aacc
16:22:22 <Zakim> -matthias_samwald_w3c
16:22:24 <Zakim> -??P0
16:22:24 <Zakim> -Olivier_Bodenreider
16:22:26 <Zakim> -Kei_Cheung
16:22:26 <Zakim> - +1.617.949.aabb
16:22:27 <Zakim> SW_HCLS()11:00AM has ended
16:22:28 <Zakim> Attendees were Kei_Cheung, Olivier_Bodenreider, +1.781.662.aaaa, matthias_samwald_w3c, +1.617.949.aabb, TN, +1.203.737.aacc
16:22:31 <bdai> bdai has left #BioRDF
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16:23:01 <kei> RRSAgent, please draft minutes
16:23:01 <RRSAgent> I have made the request to generate http://www.w3.org/2008/09/22-BioRDF-minutes.html kei
16:23:17 <kei> RRSAgent, please make log world-visible
16:23:40 <kei> RSSAgent, bye