14:53:20 <RRSAgent> RRSAgent has joined #BioRDF
14:53:20 <RRSAgent> logging to http://www.w3.org/2008/09/08-BioRDF-irc
14:54:40 <kei> agenda+ roll call [Kei]
14:54:50 <kei> agenda+ introduction [Kei]
14:55:15 <kei> agenda+ UMLS discussion [Kei]
14:55:37 <kei> agenda+ HCLS hosting [Matthias, Adrian]
14:55:56 <kei> agenda+ ideas of future work [All]
14:56:17 <kei> Eric, am I on the right track so far?
14:56:30 <ericP> yup, great
14:58:34 <matthiassamwald> eric, i will be scribe.
14:59:04 <matthiassamwald> How do I capture multiple lines for one speaker without re-typing the name for each line?
14:59:09 <matthiassamwald> I think there was a trick.
15:00:33 <ericP> matthiassamwald: I'd loved to scribe
15:00:42 <ericP> ... but how do i capture multiple lines
15:00:50 <ericP> ericP: like that ^^^
15:00:55 <kei> Zakim, this is the biordf call
15:00:55 <Zakim> sorry, kei, I do not see a conference named 'the biordf call' in progress or scheduled at this time
15:01:03 <matthiassamwald> understood.
15:01:04 <Huajun> Huajun has joined #BioRDF
15:01:25 <kei> Zakim, this is biordf
15:01:25 <Zakim> kei, SW_HCLS()11:00AM is already associated with an irc channel; use 'move biordf to here' if you mean to reassociate the channel
15:01:26 <cgolbrei> cgolbrei has joined #BioRDF
15:01:48 <ericP> Zakim, move BioRDF to here
15:01:50 <Zakim> ok, ericP; that matches SW_HCLS()11:00AM
15:01:51 <Zakim> +??P4
15:02:03 <Zakim> +??P7
15:02:26 <holger_stenzhorn> holger_stenzhorn has joined #biordf
15:02:31 <kei> zakim, who is here
15:02:31 <Zakim> kei, you need to end that query with '?'
15:02:41 <kei> zakim, where is here?
15:02:41 <Zakim> sorry, kei, I do not understand your question
15:02:48 <ericP> Zakim, who is here?
15:02:48 <Zakim> On the phone I see Kei_Cheung, ??P16, ??P17, ??P4, ??P7
15:02:49 <Zakim> On IRC I see holger_stenzhorn, cgolbrei, Huajun, RRSAgent, Zakim, matthiassamwald, kei, ericP
15:02:52 <kei> zakim who is here?
15:03:13 <Zakim> -??P7
15:03:53 <kei> matthias, did you call in?
15:04:11 <matthiassamwald> technical diff
15:04:20 <Zakim> +??P12
15:04:32 <cgolbrei> christine
15:04:49 <matthiassamwald> is the passcode HCLS or BIORDF?
15:04:53 <Donald_Doherty> Donald_Doherty has joined #biordf
15:04:56 <holger_stenzhorn> BIORDF
15:04:57 <Zakim> +EricP
15:05:04 <Huajun> the pass code is biordf
15:05:07 <kei> the passcode is BIORDF
15:05:15 <ericP> Zakim, who is speaking?
15:05:26 <Zakim> ericP, listening for 10 seconds I heard sound from the following: Kei_Cheung (33%), EricP (14%), ??P16 (59%)
15:05:43 <ericP> Zakim, please mute ??P16
15:05:43 <Zakim> ??P16 should now be muted
15:05:46 <Zakim> +Don_Doherty
15:06:19 <ericP> Zakim, who is here?
15:06:19 <Zakim> On the phone I see Kei_Cheung, ??P16 (muted), ??P17, ??P4, ??P12, EricP, Don_Doherty
15:06:22 <Zakim> On IRC I see Donald_Doherty, holger_stenzhorn, cgolbrei, Huajun, RRSAgent, Zakim, matthiassamwald, kei, ericP
15:06:28 <Zakim> +??P24
15:06:37 <AdrianPa> AdrianPa has joined #BioRDF
15:06:59 <matthiassamwald> give me one minute.
15:07:25 <Zakim> + +0493516aaaa
15:07:34 <AdrianPa> Zakim, aaaa is me
15:07:34 <Zakim> +AdrianPa; got it
15:07:44 <AdrianPa> Zakim, mute me
15:07:44 <Zakim> AdrianPa should now be muted
15:07:47 <holger_stenzhorn> Zakim, ??P4 is holger_stenzhorn
15:07:47 <Zakim> +holger_stenzhorn; got it
15:08:01 <kei> rrsagent, make minutes
15:08:01 <RRSAgent> I have made the request to generate http://www.w3.org/2008/09/08-BioRDF-minutes.html kei
15:09:00 <Zakim> +??P25
15:09:13 <ericP> Zakim, ??P24 is DanielRueben
15:09:13 <Zakim> +DanielRueben; got it
15:09:21 <matthiassamwald> Zakim ??P25 is matthiassamwald
15:09:59 <AdrianPa> I can not see the link to the slides on the webpage
15:10:05 <AdrianPa> me neither
15:10:17 <holger_stenzhorn> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2008-09-08 
15:12:26 <matthiassamwald> Kei: Olivier sent his regrets.
15:12:48 <matthiassamwald> Kei: He will hold his presentation in the next BioRDF call, in two weeks.
15:13:54 <matthiassamwald> Kei: First, let me introduce myself
15:14:22 <matthiassamwald> ... I have been involved in Semantic Web developments for more than 3 years, before the HCLSIG started.
15:14:45 <matthiassamwald> ... My main interests are bioinformatics and database integration
15:15:23 <holger_stenzhorn> holger_stenzhorn has joined #biordf
15:15:36 <Huajun> Huajun has joined #BioRDF
15:15:47 <matthiassamwald> ... Let's start with the agenda. Please open the slides that are attached to  http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2008-09-08 
15:16:53 <matthiassamwald> ... First I would like to thank Susie for coordinating the last charter of the task force. She did a very good job.
15:17:33 <matthiassamwald> ... I will talk about the near-term goals of the task force.
15:17:34 <ericP> -> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2008-09-08?action=AttachFile&do=view&target=biordf_intro.pdf slides
15:17:58 <matthiassamwald> ... I listed four near-term goals
15:18:12 <matthiassamwald> ... "Enhance the HCLS KB. As part of the enhancement, we would like to incorporate new data sets that help the KB span from bench to bedside."
15:18:32 <matthiassamwald> ... "Broaden the community of users who have skills to add data to the KB."
15:18:55 <matthiassamwald> ... "Increase the value and use of the HCLS KB by identifying scientific use cases"
15:19:05 <matthiassamwald> ... "Work on a human-friendly UI, explore
15:19:05 <matthiassamwald> mechanisms for updating the data sources, and
15:19:05 <matthiassamwald> adding new data sets.
15:19:25 <matthiassamwald> ... "
15:20:02 <ericP> -> http://www.w3.org/TR/2008/NOTE-hcls-kb-20080604/#rdfbundles  HCLS KB sources
15:20:12 <matthiassamwald> ... a list of datasets in the Neurocommons KB can be found at http://www.w3.org/TR/hcls-kb/
15:20:53 <matthiassamwald> ... The datasets were available in a variety of formats, some of them already were provided as RDF/OWL
15:21:10 <matthiassamwald> ... But in most cases we needed to convert to RDF/OWL
15:21:27 <matthiassamwald> ... During this process, we also created semantic links between datasets.
15:22:21 <matthiassamwald> ... Once we have these ontologies loaded into these triplestores, applications can be developed.
15:22:34 <ericP> q+ to mention query federation
15:22:50 <ericP> Zakim, ??P4 is holger_stenzhorn
15:22:50 <Zakim> I already had ??P4 as holger_stenzhorn, ericP
15:22:59 <ericP> Zakim, ack holger_stenzhorn 
15:22:59 <Zakim> I see ??P4, ??P24, ericP on the speaker queue
15:23:06 <matthiassamwald> ... The datasets we include will be driven by the needs of the scientists.
15:23:15 <AdrianPa> q+
15:23:22 <AdrianPa> Zakim, unmute me
15:23:22 <Zakim> AdrianPa should no longer be muted
15:24:33 <matthiassamwald> EricP: A federation approach would be better than an aggregation approach, which is not THAT different from warehousing.
15:24:51 <matthiassamwald> Kei: (agrees)
15:24:57 <ericP> q=
15:25:13 <matthiassamwald> Adrian: Would it be a static or a dynamic integration?
15:26:09 <matthiassamwald> Kei: In the warehouse approach, the datasources would be converted periodically and loaded into the triplestore from time to time. This might be associated with better performance for query.
15:26:26 <matthiassamwald> ... In the federated approach, queries must be mapped to distributed sub-queries.
15:27:04 <AdrianPa> Zakim, mute me
15:27:04 <Zakim> AdrianPa should now be muted
15:27:09 <ericP> Zakim, who is muted?
15:27:09 <Zakim> I see ??P16, AdrianPa muted
15:27:17 <Huajun> can u hear me?
15:27:20 <ericP> ack ??P16
15:27:59 <matthiassamwald> Huajun: As more datasets will be loaded, will there be a performance issue?
15:28:03 <ericP> queue=
15:28:36 <matthiassamwald> Kei: I cannot answer that accurately now. It depends on the queries.
15:31:12 <ericP> Zakim, please mute ??P16
15:31:12 <Zakim> ??P16 should now be muted
15:31:26 <ericP> Zakim, ??P16 is Huajun 
15:31:27 <Zakim> +Huajun; got it
15:31:28 <matthiassamwald> ... On with the agenda... Olivier will talk about the conversion of UMLS into RDF in the next telecon.
15:32:13 <matthiassamwald> ... The reason for inlcuding the work on UMLS was motivated by the interest of many participants, e.g., interest in SNOMED, interest from the COI group...
15:32:56 <matthiassamwald> ... UMLS is also important for bioinformatics, e.g., for network analysis and data mining.
15:34:23 <matthiassamwald> Kei: Of course, there is an issue with licensing.
15:34:45 <matthiassamwald> ... It is open-access within the US if you sign an agreement with NLM.
15:35:41 <matthiassamwald> ... It might be a problem.
15:35:59 <matthiassamwald> ... What are the licensing issues with SNOMED?
15:36:24 <matthiassamwald> Holger: We are currently working with SNOMED, it is a problem here in Germany.
15:36:43 <matthiassamwald> ... John Madden wanted to ask the people at SNOMED. We can give you an update when we find out more.
15:37:12 <matthiassamwald> EricP: It might make it easier if we just require parts of SNOMED for certain projects.
15:37:51 <matthiassamwald> Kei: Exploring those licensing issues could be an agenda item for someone in this group.
15:38:50 <matthiassamwald> (Who is talking?)
15:40:30 <AdrianPa> Zakim, unmute me
15:40:30 <Zakim> AdrianPa should no longer be muted
15:40:38 <matthiassamwald> Kei: Let's talk about hosting of the KB
15:41:05 <matthiassamwald> ... The first was at Science Commons, the other at DERI. They were not exact mirrors, but close.
15:41:27 <matthiassamwald> ... How do we migrate the data from the current to the new KB?
15:42:17 <AdrianPa> Zakim, mute me
15:42:17 <Zakim> AdrianPa should now be muted
15:42:22 <holger_stenzhorn> Matthais: finished my PhD on SW and biomedical research and neurological research
15:42:33 <holger_stenzhorn> M.. now working for DERI Ireleand
15:42:45 <matthiassamwald> http://hcls.deri.ie
15:43:00 <holger_stenzhorn> ....DERI agreed on hosting the knowledgebase at their site
15:43:20 <holger_stenzhorn> ...DERI still has still this commitment
15:43:30 <holger_stenzhorn> ...and to start projects in the HCLS area
15:43:54 <holger_stenzhorn> ...cureently, quite good situation: we can probably use the DERI server for the next 2 years in our developments
15:44:12 <holger_stenzhorn> Kei: what support can be given by DERI for the hosting?
15:44:34 <holger_stenzhorn> Matthias: inofficial agreement, that we can use the DERI servers for the next 2 years
15:44:49 <holger_stenzhorn> ...but it needs to get official agreement for that
15:45:03 <holger_stenzhorn> ...but everybody gives me thumbs up
15:45:24 <holger_stenzhorn> ...I have personally set up the current HCLS server at DERI and would continue that
15:45:45 <holger_stenzhorn> ...the machine that the Virtuoso server is running on is quite good, a quad core with large memory
15:46:04 <holger_stenzhorn> ...should be sufficient for supporting the data over the next 2 years
15:46:19 <holger_stenzhorn> ...so that server can be the main hub for the data over the next 2 years
15:47:08 <holger_stenzhorn> Kei: could relay that to the request to the HCLS chairs and get back to you
15:47:14 <holger_stenzhorn> Matthias: that makes sense
15:47:25 <holger_stenzhorn> Kei: so I will do that request
15:47:30 <AdrianPa> Zakim, unmute me
15:47:30 <Zakim> AdrianPa should no longer be muted
15:47:38 <matthiassamwald> thanks, holger. will scribe again.
15:47:59 <matthiassamwald> Kei: Adrian, could you describe your situation now.
15:48:18 <matthiassamwald> Adrian: I will move to Berlin soon and be part of a new working group.
15:48:44 <matthiassamwald> ... I keep on working on Rule Responder and Semantic Web for e-science.
15:49:08 <matthiassamwald> ... So this would still be of interest. 
15:49:24 <matthiassamwald> ... But I am still negotiating with the institution in Berlin.
15:49:43 <matthiassamwald> ... So I cannot commit anything at the moment.
15:50:16 <matthiassamwald> ... I will try to get more details soon.
15:51:22 <AdrianPa> Zakim, mute me
15:51:22 <Zakim> AdrianPa should now be muted
15:51:41 <ericP> matthiassamwald: re KB development, how will the HCLS KB sync with the Science Commons KB
15:51:46 <ericP> ?
15:52:30 <matthiassamwald> Kei: Unfortunately, I still don't know the official status of Science Commons in this charter.
15:53:37 <matthiassamwald> ... We need to talk to Neurocommons and the HCLS chairs to build some consensus.
15:55:25 <matthiassamwald> Kei: Last agenda item -- ideas for future work.
15:55:47 <matthiassamwald> ... There is a wiki page about project ideas.
15:56:38 <matthiassamwald> ... We should also define how we can interact with other task forces (e.g. clinical).
15:56:38 <Huajun> Huajun has joined #BioRDF
15:56:58 <kei> http://esw.w3.org/topic/HCLSIG/Project_Ideas/
15:57:39 <matthiassamwald> eric: i am most interested in projects that build on what we currently have.
15:57:50 <matthiassamwald> ... and also 'bench to bedside' work.
15:58:41 <matthiassamwald> ... we have some gaps in the KB that hinder interesting use cases.
15:59:56 <matthiassamwald> kei: huajun proposed an integration of traditional chinese medicine data with western medicine.
16:00:10 <matthiassamwald> ... i proposed 'wiki neuron'. 
16:02:02 <Zakim> -DanielRueben
16:02:42 <matthiassamwald> matthias: i plan to focus on semantic web technologies for (neuro-)cognitive science.
16:03:07 <matthiassamwald> Kei: the next call will be in two weeks.
16:03:37 <AdrianPa> bye
16:03:45 <Zakim> -holger_stenzhorn
16:03:47 <Zakim> -Don_Doherty
16:03:47 <Zakim> -AdrianPa
16:03:48 <Zakim> -??P25
16:03:49 <Zakim> -EricP
16:03:50 <Zakim> -??P17
16:03:54 <Zakim> -Huajun
16:04:12 <cgolbrei> bye
16:04:25 <Zakim> -??P12
16:04:32 <kei> eric, are you still there?
16:04:40 <ericP> on irc, yes
16:04:55 <matthiassamwald> eric, you take care about rrsagent, right?
16:05:12 <ericP> RRSAgent, please draft minutes
16:05:12 <RRSAgent> I have made the request to generate http://www.w3.org/2008/09/08-BioRDF-minutes.html ericP
16:05:22 <matthiassamwald> thanks. bye!
16:05:24 <ericP> RRSAgent, bye
16:05:37 <holger_stenzhorn> holger_stenzhorn has left #biordf
16:05:40 <ericP> RRSAgent, please make log world-visible
16:05:42 <ericP> RRSAgent, bye
16:05:42 <RRSAgent> I see no action items