15:52:59 <RRSAgent> RRSAgent has joined #hcls
15:52:59 <RRSAgent> logging to http://www.w3.org/2009/01/12-hcls-irc
15:53:20 <kei> agenda+ roll call [Kei]
15:54:15 <kei> agenda+ hclskb update [Matthias, Adrian]
15:54:32 <kei> agenda+ query federation [All]
15:54:53 <kei> agenda+ biosioc [Matthias]
15:55:03 <kei> agenda+ next step [All]
15:56:06 <matthias_samwald> matthias_samwald has joined #hcls
15:56:52 <RobFrost> RobFrost has joined #HCLS
16:01:40 <mscottm> mscottm has joined #hcls
16:02:05 <ericP> Zakim, please dial ericP-office
16:02:05 <Zakim> sorry, ericP, I don't know what conference this is
16:02:09 <ericP> Zakim, this is hcls
16:02:09 <Zakim> ok, ericP; that matches SW_HCLS(BioRDF)11:00AM
16:02:10 <Zakim> + +0186528aabb
16:02:12 <ericP> Zakim, please dial ericP-office
16:02:12 <Zakim> ok, ericP; the call is being made
16:02:14 <Zakim> +EricP
16:02:18 <ericP> Zakim, who is here?
16:02:18 <Zakim> On the phone I see RobFrost, Kei_Cheung, +1.312.041.aaaa, +0186528aabb, EricP
16:02:20 <Zakim> On IRC I see mscottm, RobFrost, matthias_samwald, RRSAgent, kei, Zakim, ericP, Cloud
16:02:32 <ericP> Zakim, +0186528aabb is Jun
16:02:32 <Zakim> +Jun; got it
16:02:50 <ericP> Zakim, +1.312.041.aaaa is mscottm 
16:02:50 <Zakim> +mscottm; got it
16:02:58 <ericP> Zakim, who is here?
16:02:58 <Zakim> On the phone I see RobFrost, Kei_Cheung, mscottm, Jun, EricP
16:02:59 <Zakim> On IRC I see mscottm, RobFrost, matthias_samwald, RRSAgent, kei, Zakim, ericP, Cloud
16:03:29 <Jun> Jun has joined #hcls
16:03:40 <Zakim> +jules
16:04:05 <ericP> Zakim, jules is matthias_samwald 
16:04:05 <Zakim> +matthias_samwald; got it
16:04:09 <matthias_samwald> thanks
16:05:34 <ericP> scribe: ericP
16:05:38 <ericP> meeting: BioRDF
16:05:42 <ericP> chair: Kei
16:05:54 <ericP> agenda linke?
16:05:56 <ericP> link?
16:06:07 <Jun> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009-01-12
16:06:14 <ericP> agenda+ update on BioRDF (and Homepage)
16:06:28 <ericP> agenda+ update on HCLS KB [ matthias_samwald ]
16:06:50 <ericP> agenda+ query federation demo
16:07:00 <ericP> agenda=
16:07:18 <ericP> agenda+ BioSioc sub-task
16:07:35 <ericP> agenda+ AOB
16:07:44 <ericP> Zakim, take up agendum 10
16:07:45 <Zakim> agendum 10. "update on BioRDF (and Homepage)" taken up [from ericP]
16:07:54 <kei> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup
16:08:05 <ericP> kei: updated BioRDF homepage this weekend
16:09:50 <ericP> ... wrote introductory paragraph
16:09:52 <ericP> ... please make suggestions on wording
16:10:15 <ericP> ... listed objectives:
16:10:40 <ericP> ... .. enhance HCLS KB; new datasets to help KB span HC and LS
16:10:53 <ericP> ... .. identify scientic use cases
16:11:12 <ericP> ... .. maintainability of data sets
16:11:51 <ericP> ... .. disseminate the HCLS KB (and SemWeb) gospel 
16:13:28 <ericP> Jun: will we include the pointers to the new KBs query interfaces?
16:13:32 <ericP> kei: good idea
16:14:03 <ericP> Jun: relevent literature, e.g. special issues on life science data integration
16:14:21 <ericP> kei: could go under meetings. if the list gets to long, could move to a separate page
16:14:47 <ericP> ACTION: kei to start a list of relevent literature on the BioRDF homepage
16:14:54 <ericP> matthias_samwald: [update on HCLS KB at DERI]
16:15:04 <ericP> ... SPARQL endpoint up and running
16:15:15 <ericP> ... data consists only of neurocommons
16:15:39 <ericP> ... not finalized a DRUPAL interface
16:16:16 <AdrianP> AdrianP has joined #hcls
16:16:20 <ericP> ... looking at performance integrations, e.g. reconfiguring index to improve performance of queries which don't include named graphs
16:16:36 <ericP> kei: do you plan to incorporate additional sources?
16:17:11 <ericP> matthias_samwald: within BioSioc, yes. but need discussion within the BioRDF group to see what we want in there
16:18:09 <Zakim> +??P1
16:18:21 <ericP> ... suggested we take a closer look at what is coming out of Virtuoso
16:18:21 <AdrianP> Zakim, ??P1 is me
16:18:21 <Zakim> +AdrianP; got it
16:18:43 <AdrianP> Zakim, mute me
16:18:43 <Zakim> AdrianP should now be muted
16:19:56 <ericP> ... neurocommons KB will be offered in the Amazon cloud computing infrastructure
16:20:34 <AdrianP> Zakim, unmute me
16:20:34 <Zakim> AdrianP should no longer be muted
16:20:35 <ericP> ... can be used as a comodity by us
16:20:59 <Jun> Zakim, mute me
16:20:59 <Zakim> Jun should now be muted
16:21:39 <AdrianP> http://www.corporate-semantic-web.de/hcls.html
16:21:41 <ericP> AdrianP: we have an AllegroGraph triple store at Free Univ Berlin
16:21:56 <ericP> ... have loaded the Senselab data
16:22:38 <ericP> kei: senselab ontology available in the neurcommons KB? so it's redundant?
16:22:42 <ericP> AdrianP: yes
16:23:24 <ericP> kei: we're not trying to compare the performance of these two triple stores
16:23:45 <ericP> ... but is good to make folks aware of the features available in the two
16:24:28 <ericP> matthias_samwald: [update on SWAN SIOC]
16:25:02 <AdrianP> composition of multiple triple-stores into a single virtual store
16:25:04 <ericP> RobFrost: triple store comparison helps you learn about and select proprietary features
16:25:11 <AdrianP> Zakim, mute me
16:25:11 <Zakim> AdrianP should now be muted
16:25:30 <ericP> ... but certainly having non-overlapping content is the driving force
16:26:11 <ericP> ... [DBPedia and neuro-receptor use case]
16:26:26 <AdrianP> Zakim, unmute me
16:26:26 <Zakim> AdrianP should no longer be muted
16:26:41 <ericP> kei: need to look at what component needs to be added to one of these interfaces
16:27:10 <ericP> ... can we identify a couple queries that are useful for comparison purposes, while we are thinking about the dataset to include
16:28:20 <ericP> RobFrost: tying in another, non-HCLS database, including less-structured wiki content seems intriguing
16:29:02 <Zakim> -EricP
16:29:11 <ericP> Zakim, please dial ericP-office
16:29:11 <Zakim> ok, ericP; the call is being made
16:29:12 <Zakim> +EricP
16:30:35 <AdrianP> Zakim, mute me
16:30:35 <Zakim> AdrianP should now be muted
16:31:14 <AdrianP> AllegroGraph supports RDFS++ Reasoning
16:31:37 <AdrianP> and integrates with RacerPro for DL reasoning
16:33:41 <AdrianP> Zakim, unmute me
16:33:41 <Zakim> AdrianP should no longer be muted
16:34:10 <ericP> AdrianP: AllegroGraph has query support for RDFS++
16:34:28 <ericP> kei: can is support this construction at arbitrary levels?
16:35:15 <ericP> mscottm: two ways to reach the same result:
16:35:36 <ericP>  ... .. e.g. go off-line with Pellet, run the transitive closures, and re-insert into the graph
16:35:58 <ericP> ... .. query-time reasoning is of course more convenient
16:36:09 <AdrianP> yes, we need to try it out
16:36:33 <ericP> ... there are some stores that are supposed to reason over a 200M triples
16:36:52 <ericP> ... many tasks don't scale to that level
16:37:10 <matthias_samwald> yes it has
16:37:30 <AdrianP> yes
16:37:31 <matthias_samwald> (meaning: virtuoso has features for subclass/suproperty reasoning)
16:37:39 <Jun> http://docs.openlinksw.com/virtuoso/rdfsparqlrule.html
16:38:05 <ericP> s/\?//
16:39:16 <ericP> RRSAgent, please draft minutes
16:39:16 <RRSAgent> I have made the request to generate http://www.w3.org/2009/01/12-hcls-minutes.html ericP
16:39:38 <ericP> Zakim, please take up next agendum
16:39:38 <Zakim> agendum 1. "introductions" taken up [from johnM]
16:39:44 <ericP> Zakim, please take up agendum 12
16:39:44 <Zakim> agendum 12. "query federation demo" taken up [from ericP]
16:39:58 <ericP> Zakim, please take up agendum 11
16:39:58 <Zakim> agendum 11. "update on HCLS KB" taken up [from  matthias_samwald  via ericP]
16:40:12 <RobFrost> I can test out the virtuoso subsumption support on the yago receptor tree in dbpedia
16:41:20 <AdrianP> Zakim, mute me
16:41:20 <Zakim> AdrianP should now be muted
16:41:26 <ericP> matthias_samwald: [update on BioSioc]
16:41:38 <ericP> ... email list and a rudimentary wiki page
16:41:40 <RobFrost> http://dbpedia.org/class/yago/Receptor105608868
16:41:47 <ericP> ... will give a short presentation next week
16:42:40 <ericP> ... idea is to take an approach simpler than the HCLS KB
16:42:51 <ericP> ... take only the important statements
16:43:38 <ericP> ... plan to optimize for querying
16:43:51 <ericP> ... and develop UIs
16:44:28 <ericP> ... expect to use RDFa to embed SIOC statements
16:45:41 <ericP> ... want to explore the A tag for representing [structured] biological statements in [unstructured] pages
16:46:06 <ericP> ... thesis: can be useful given intuitive interfaces
16:46:11 <matthias_samwald> "aTag", a shorthand for "associative tag".
16:47:14 <kei> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation
16:47:17 <ericP> Zakim, please take up agendum 12
16:47:17 <Zakim> agendum 12. "query federation demo" taken up [from ericP]
16:48:43 <matthias_samwald> I need to leave now, bye!
16:48:46 <ericP> kei: we need to demo queries across heterogeneous DB
16:49:00 <ericP> ... first is the neuroscience data integration use case
16:49:09 <matthias_samwald> matthias_samwald has left #hcls
16:49:09 <Zakim> -matthias_samwald
16:49:26 <ericP> ... in the last charter, we showed how SemWeb could be used for integrating life science data
16:49:36 <ericP> ... want to re-use that data
16:50:48 <ericP> ... have drilled down a little bit in thinking about linking neurons cells and genes
16:50:59 <ericP> ... need to consider receptors
16:52:41 <ericP> ... can combine receptor trees from multiple sources
16:54:15 <ericP> ... once folks find a receptor of interest, users can drill down
16:55:13 <ericP> http://www.w3.org/2004/10/04-pharmaFederate/
17:00:56 <Jun> Zakim, unmute me
17:00:56 <Zakim> Jun should no longer be muted
17:01:21 <ericP> kei: it seems we have diverse approaches to federation
17:01:28 <ericP> ... how can we coordinate these?
17:01:58 <ericP> mscottm: one prob is "what part of the federation system has what's interesting to me?"
17:02:14 <ericP> ... the common naming system makes this a bit easier
17:02:50 <ericP> ... i.e. i can register myself as supplying information about X
17:03:59 <Zakim> -EricP
17:04:45 <Zakim> -mscottm
17:06:51 <RobFrost> http://dbpedia.org/page/5-HT3_receptor
17:10:27 <AdrianP> bye
17:10:31 <Zakim> -RobFrost
17:10:32 <Zakim> -AdrianP
17:10:36 <Zakim> -Jun
17:10:39 <Zakim> -Kei_Cheung
17:10:40 <Zakim> SW_HCLS(BioRDF)11:00AM has ended
17:10:42 <Zakim> Attendees were RobFrost, Kei_Cheung, EricP, Jun, mscottm, matthias_samwald, AdrianP
17:12:06 <kei> RRSAgent, please draft minutes
17:12:06 <RRSAgent> I have made the request to generate http://www.w3.org/2009/01/12-hcls-minutes.html kei
17:12:15 <kei> RRSAgent, please make log world-visible
17:27:33 <ericP> RRSAgent, please draft minutes
17:27:33 <RRSAgent> I have made the request to generate http://www.w3.org/2009/01/12-hcls-minutes.html ericP
17:27:55 <ericP> RRSAgent, please make log world-visible