15:58:18 <RRSAgent> RRSAgent has joined #hcls
15:58:18 <RRSAgent> logging to http://www.w3.org/2010/02/22-hcls-irc
15:58:26 <kei> Zakim, this will be BioRDF
15:58:26 <Zakim> ok, kei; I see SW_HCLS(BioRDF)11:00AM scheduled to start in 2 minutes
15:59:08 <mscottm> mscottm has joined #hcls
15:59:36 <Zakim> SW_HCLS(BioRDF)11:00AM has now started
15:59:43 <Zakim> + +1.650.319.aaaa
16:00:44 <Zakim> +??P20
16:00:54 <Zakim> +Kei_Cheung
16:01:47 <Zakim> + +1.206.605.aabb
16:01:56 <matthias_samwald> matthias_samwald has joined #hcls
16:02:11 <mscottm> Zakim, who is here?
16:02:11 <Zakim> On the phone I see +1.650.319.aaaa, ??P20, Kei_Cheung, +1.206.605.aabb
16:02:13 <Zakim> On IRC I see matthias_samwald, mscottm, RRSAgent, Zakim, kei, egonw, ericP
16:02:24 <mib_pmxqge> mib_pmxqge has joined #hcls
16:02:28 <Zakim> +??P27
16:02:35 <jun> jun has joined #hcls
16:02:41 <mscottm> Zakim, 1.206.605.aabb is michael
16:02:42 <Zakim> +jun
16:02:44 <Zakim> sorry, mscottm, I do not recognize a party named '1.206.605.aabb'
16:02:49 <mscottm> Zakim, +1.206.605.aabb is michael
16:02:54 <Zakim> +michael; got it
16:03:16 <mscottm> Zakim, ??P20 is dmitry
16:03:16 <Zakim> +dmitry; got it
16:03:45 <mscottm> Zakim, +1.650.319.aaaa is mscottm
16:03:45 <Zakim> +mscottm; got it
16:04:02 <kei> scribenick jun
16:04:16 <jun> zakim, mute me
16:04:16 <Zakim> jun should now be muted
16:06:13 <mscottm> Zakim, mib_pmxqge is michael
16:06:13 <Zakim> sorry, mscottm, I do not recognize a party named 'mib_pmxqge'
16:08:08 <dmitry> dmitry has joined #HCLS
16:08:18 <ericP> Zakim, please dial ericP-office
16:08:18 <Zakim> ok, ericP; the call is being made
16:08:19 <dmitry> Hi everyone!
16:08:20 <Zakim> +EricP
16:09:46 <kei> jun -- I'll have you scribe
16:10:31 <kei> text mining
16:10:33 <jun> Topic: introduction
16:10:42 <mscottm> dmitry: works for NBIC Netherlands Bioinformatics Center and Concept Web Alliance
16:11:01 <jun> dimitry: interested in text mining
16:11:51 <jun> dimitry: develop web services for the text mining tasks
16:12:16 <jun> dimitry: they can also be used in Taverna workflows
16:13:01 <jun> dimitry: how are these medicines previously known for
16:14:00 <dmitry> You can read more details at wiki page: https://wiki.nbic.nl/index.php/User:Dmitry_Katsubo
16:14:04 <jun> dimitry: explore workflows for query federation
16:14:36 <jun> topic: updates on biohackthon
16:14:42 <matthias_samwald> http://hackathon3.dbcls.jp/
16:15:16 <jun> matthias: sponsored by Japanese government; about 20 participants
16:15:49 <jun> matthias:took place twice previously
16:15:56 <jun> matthias: works on SW for LS
16:16:44 <jun> matthias:Mark Musen, and Francois from Bio2RDF and ppl from UniProt
16:17:04 <jun> matthias: also ppl from KEGG
16:17:37 <jun> matthias: 1st day on presentation, the rest of the week on development
16:18:14 <jun> matthias:Francois gave a very extensive introduction to Bio2RDF
16:19:15 <dmitry> I have a question to Matthias: what software / tools / frameworks have been chosen for Hackathon? And what was done (developed / produced) by the end of it?
16:19:28 <jun> matthias:huge interests in exposing large life science databases as RDF, based on hpc clusters
16:19:55 <jun> matthias:very exciting to see many DBs are to be exposed as RDF
16:20:43 <jun> matthias:convert text mining results into RDF, RDFa and aTag formats
16:21:16 <jun> matthias:Reflect now can outputs annotations as RDFa and can be used with LODD
16:21:48 <jun> matthias:Reflect won last year's Elsevier Grand challenge
16:22:41 <jun> matthias:will give more detailed reports with Mark
16:23:32 <jun> dmitry: what actual tools are used and what was produced in the end of hackathon? what lessons learnt to make such events more productive
16:25:51 <mscottm> Zakim, who is here?
16:25:51 <Zakim> On the phone I see mscottm, dmitry, Kei_Cheung, michael, ??P27, jun (muted), EricP
16:25:53 <Zakim> On IRC I see dmitry, jun, mib_pmxqge, matthias_samwald, mscottm, RRSAgent, Zakim, kei, egonw, ericP
16:25:57 <jun> matthias:ppl already know each other's interest and profile; a lot of coordination before the event
16:26:21 <mscottm> q+
16:26:50 <jun> matthias: 2 days to know each other; coordinate prior to the event via events, to get a clear goal beforehand
16:28:02 <jun> kei: what kind of activities, e.g., around ontologies?
16:28:31 <jun> matthias:was on the text mining group. there are also RDFizer group, headed by Bio2RDF
16:29:05 <ericP> q+ to ask about rdb2rdf use cases
16:29:44 <jun> matthias: outcome, for the japanese community to publish RDF data, and the how-tos
16:30:51 <jun> matthias:more discussions about what vocabulary to use, etc
16:31:57 <Zakim> -??P27
16:32:14 <matthias_samwald> (was disconnected, redialing now...)
16:32:25 <Zakim> +??P4
16:32:27 <matthias_samwald> (back again)
16:33:54 <jun> scott: concept web alliance is also working on outreaching the SW to the communities
16:35:59 <jun> matthias: d2r was used to convert Ensembl into RDF, in very short time
16:37:46 <jun> scott: uniprot is still very interested in RDF
16:38:18 <jun> scott: will include RDF in their production system
16:39:49 <jun> scott: went to geneva with Eric, for the collaboration between uniprot and hcls
16:42:00 <jun> eric: would like to feedback to the rdb2rdf group, requirements from our hcls group
16:42:18 <ericP> -> http://www.w3.org/2001/sw/rdb2rdf/wiki/Use_Cases_and_Requirements RDB2RDF Use Cases and Requirements wiki
16:43:39 <matthias_samwald> i need to leave now, bye!
16:43:54 <jun> topic: biordf slides for c-shals
16:43:56 <Zakim> -??P4
16:44:16 <jun> kei: ask for feedback from the group
16:44:36 <jun> kei: talk about the query federation
16:45:12 <jun> kei: also update on the TCM project, as a collaboration with lodd
16:46:10 <jun> kei: matthias recently submitted a paper to the CM special issue
16:52:03 <mscottm> marshall@science.uva.nl
16:55:11 <jun> michael: supp. data in pdf or in the document are not very helpful. prefer in excel spreadsheets
16:56:09 <jun> michael: will raise our rdf activity in the mged meeting
16:59:54 <jun> kei: how to make progress on the rdf+mged work while lena is busy
17:01:35 <jun> you can load csv files into an RDB and work from there?
17:03:20 <ericP> 17:00Z
17:04:09 <Zakim> -mscottm
17:04:36 <jun> Kei, are you going to generate the minutes?
17:05:58 <Zakim> -michael
17:06:14 <Zakim> -EricP
17:06:16 <Zakim> -Kei_Cheung
17:06:34 <kei>  RRSAgent, please draft minutes
17:06:34 <RRSAgent> I have made the request to generate http://www.w3.org/2010/02/22-hcls-minutes.html kei
17:06:42 <kei> RRSAgent, please make log world-visible
17:06:48 <Zakim> -dmitry
17:06:50 <kei> Thanks Jun!
17:07:01 <dmitry> Yes, Zakim?
17:07:54 <dmitry> It was just a notification. Thank you all for the nice talk!
17:11:48 <Zakim> disconnecting the lone participant, jun, in SW_HCLS(BioRDF)11:00AM
17:11:50 <Zakim> SW_HCLS(BioRDF)11:00AM has ended
17:11:51 <Zakim> Attendees were Kei_Cheung, jun, michael, dmitry, mscottm, EricP
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