15:59:48 <RRSAgent> RRSAgent has joined #hcls
15:59:48 <RRSAgent> logging to http://www.w3.org/2007/02/06-hcls-irc
15:59:59 <vipul> rrsagent, make logs world-visible
16:00:28 <Zakim> SW_HCLS(Bio-Ont WG)11:00AM has now started
16:00:29 <Zakim> +Vipul_Kashyap
16:00:48 <Zakim> +Don_Doherty
16:01:31 <Zakim> +Bill_Bug
16:01:53 <Don> Don has joined #hcls
16:03:25 <Zakim> +John_Barkley
16:03:51 <vipul> http://esw.w3.org/topic/HCLS/ACPPTaskForce?action=AttachFile&do=get&target=SlidesACPPFeb6_07.html 
16:05:21 <helen> helen has joined #hcls
16:05:32 <helen> sorry I am late
16:05:39 <vipul> no problem
16:05:39 <helen> still dial in now
16:05:46 <helen> http://esw.w3.org/topic/HCLS/ACPPTaskForce?action=AttachFile&do=get&target=SlidesACPPFeb6_07.html#(1)
16:06:53 <Zakim> +[IPcaller]
16:07:12 <vipul> Zakim, who's on the call?
16:07:12 <Zakim> On the phone I see Vipul_Kashyap, Don_Doherty, Bill_Bug, John_Barkley, [IPcaller]
16:08:10 <helen> Zakim, [IPcaller] is Helen
16:08:10 <Zakim> +Helen; got it
16:09:35 <BillBug> VK: Review Use of PATO statements for AD & PD Use Cases
16:10:19 <BillBug> DD: We assume SWAN will produce RDF for use in the HCLSIG demo.  Will this also be made avaialble in the Science Commons for future use?
16:11:22 <vipul> Action: Look at the RDF Graphs and figure out architectural best practices to refer to Distilled Knowledge Resources
16:12:31 <BillBug> DD: AD folks do this work full-time; DD (and others) does PD Use Case work doing this gratis on top of other work.
16:14:04 <vipul> DD: Action Item 1 to be owned by Bill, Don and Helen
16:15:32 <BillBug> Action: create data flow diagram for demo - Demo script --> BioRDF sources --> Distilled KRs
16:18:25 <vipul> DD: Start with a simple interface, e.g., PubMed
16:18:37 <vipul> DD: Match against strings in RDF data sets
16:19:53 <vipul> DD: Look for relations to Distilled knowledge sources
16:20:44 <vipul> DD: Present as a next step as refining query
16:21:17 <vipul> DD: Menus pre-populated from most frequently occurring DKR concepts
16:21:50 <vipul> DD: Faceted browser inspired by an ontology
16:22:33 <Don> Vipul, the previous statements are by BB
16:22:36 <vipul> VK: M Scott Marshall could take a look at these things
16:22:40 <vipul> Oops!!!
16:22:53 <vipul> Replace DD by BB
16:24:11 <BillBug> HC: Can't start with free text - no clear way to map into RDF statement
16:28:52 <vipul> http://gopubmed.org
16:29:12 <BillBug> http://www.gopubmed.org/
16:36:18 <helen> http://esw.w3.org/topic/HCLS/ACPPTaskForce?action=AttachFile&do=get&target=SlidesACPPFeb6_07.html#(3)
16:36:48 <vipul> BB: Bill will post the URLs of two papers/presentations by Amarnath on the BIRN Mediator
16:42:22 <BillBug> BIRN Data & Tools: http://www.nbirn.net/downloads/index.shtm
16:42:24 <BillBug> BIRN neuroimaging metadata XML Schema: XCEDE - http://www.nbirn.net/downloads/xcede/index.shtm
16:42:26 <BillBug> BIRNLex ontology (OWLDocs view - avaialble as OWL files, too): http://www.nbirn.net/birnlex/index.htm
16:42:28 <BillBug> BIRN data relevant to HCLSIG Demo:
16:42:30 <BillBug>    * Cell-Centered Database: http://ccdb.ucsd.edu/index.htm
16:43:01 <Don> Bill, are the BIRNLex OWL files available now?!
16:58:38 <BillBug> Yes - I can distribute what I have.  There have been some URI problems for the imports (BIRNLex is 6 OWL files, some of which are other public ontologies imported via owl:import).
17:01:14 <Zakim> -John_Barkley
17:04:32 <BillBug> Recent BIRN Mediator articles (Amarnath Gupta et al.):
17:04:34 <BillBug>    * Semantically Based Data Integration Environment for Biomedical Research
17:04:36 <BillBug>           Vadim Astakhov, Amarnath Gupta, Jeffrey S. Grethe, Edward Ross, David Little, Aylin Yilmaz, Xufei Qian, Simone Santini, Maryann Martone, Mark Ellisman.
17:04:38 <BillBug>           Proceedings of the 19th IEEE Symposium on Computer-Based Medical Systems (CBMS'06)
17:04:39 <BillBug>      * Data Integration and Ontologies for Biomedical Applications
17:04:41 <BillBug>           Amarnath Gupta, Vadim Astakhov, and Christopher Condit
17:04:42 <BillBug>           VLDB 2006
17:04:44 <BillBug>           form PDF, see http://aitrc.kaist.ac.kr/~vldb06/fullprogram.html
17:04:45 <BillBug>      * OntoQuest: Exploring Ontological Data Made Easy 
17:04:47 <BillBug>            Li Chen, Maryann Martone, Amarnath Gupta, Lisa Fong, Mona Wong-Barnum
17:04:48 <BillBug>            VLDB 2006
17:04:50 <BillBug>            form PDF, see http://aitrc.kaist.ac.kr/~vldb06/fullprogram.html
17:05:03 <BillBug> Ooops - those VLDB2006 articles are both the same thing - download the SLIDES not the PAPER.
17:06:05 <vipul> Thanks, Bill!
17:06:19 <vipul> This could be posted on the wiki when we get Amarnath to speak
17:24:08 <Zakim> -Helen
17:24:10 <Zakim> -Don_Doherty
17:24:12 <Zakim> -Vipul_Kashyap
17:24:16 <Zakim> -Bill_Bug
17:24:17 <Zakim> SW_HCLS(Bio-Ont WG)11:00AM has ended
17:24:18 <Zakim> Attendees were Vipul_Kashyap, Don_Doherty, Bill_Bug, John_Barkley, Helen
17:24:30 <BillBug> VK: Helen made many wonderful points through her presentation - lessons learned - etc.  Please write up and add to Wiki along with presentation.
17:24:32 <BillBug> HC: Will try to do.
18:18:29 <Zakim> Zakim has left #hcls