meeting record: HCLS telecon 2008-11-13

http://www.w3.org/2008/11/13-hcls-minutes


                                  HCLS Telecon

13 Nov 2008

   See also: [2]IRC log

Attendees

   Chair
          MScottM

   Scribe
          ericP

Contents

     * [3]Topics
         1. [4]introductions
         2. [5]flyweb [Jun]
         3. [6]f2f [mscottm]
         4. [7]Summary of ISWC [ericP]
         5. [8]Outreach Update [SusieS]
     * [9]Summary of Action Items
     __________________________________________________________________



   <matthias_samwald> hi, i am only listening (sitting in a public place)

   i have pretty bad static as well

introductions

   KevinDoyle: i'm from Teranode
   ... we have a product that uses Oracle's triple store
   ... i serve as an interface between customer (so i know their
   applications) and developers

flyweb [Jun]

   <Jun> flyweb

   <mscottm>
   [10]http://users.ox.ac.uk/~zool0770/presentations/2008_11-13_HCLS_Call.
   pdf

   <Jun> [11]http://openflydata.org/flyui/build/apps/imagemashup2/

   <matthias_samwald> i see both

   mscottm: you have a lookup for overloaded gene names. is that local?
   ... so you have all synonyms available?

   Jun: yes, quite authoritative within the Dres community

   slide: [SPARQL queries]

   jun: sparql tools with 8M [triples? records?] were too slow on
   case-insensitive searches so we down-cased everything

   slide: [The RDF data sources]

   Jun: we used d2rq
   ... we were conservative so we could impose minimal semantic
   interpretations

   <Jun> chris mugall

   <Jun> mungall

   Jun: Chris Mungall published one with much more semantic interpreation

   slide: [SPARQLite Protocol]

   Jun: streaming was very important to our app
   ... otherwise we ran into memory limitations
   ... we want to eliminate killer queries (including CONSTRUCT)

   slide: [Lessons]

   Jun: we find the unified RDF approach easier, but saw no overwhelming
   reason we couldn't use conventional tooling
   ... but RDF proved easier when we had to connect to another data source
   (an RDB)

   <Jun> unbounded

   OPTIONAL { ... ?x } FILTER (!BOUND(?x))

   ericP: was streaming sparql getting around a protocol limitation, or an
   implementation limitation

   jun: implementation

   ericP: what were your killer queries?

   jun: will send

   mscottm: what's the cost and challenge to cloud computing for this?
   ... you said text matching was expensive
   ... e.g. identifier completion?

   <matthias_samwald> Amazon EC2 pricing:
   [12]http://aws.amazon.com/ec2/#pricing

   jun: we don't want to do too many LIKE queries -- leave that to user
   ... text completions is lower priority than adding data sources to
   flyweb

   kei: is the use case focused on developmental biology, and will you
   expand the biological domain?

   jun: yes, and we are looking for opportunities to do so

   kei: are you considering other gene expression data, e.g. microarray?

   jun: yes, the @@X and @@Y databases have microarray data

   <Jun> flyatlas

   jun: we'll have some microarray data
   ... for instance, we'll integrate flyatlas into the next release of
   flyweb

   <mscottm> [13]http://www.w3.org/2001/sw/hcls/

f2f [mscottm]

   mscottm: f2f was at the W3C TPAC in mandelieu FR. allowed us to geek
   with other folks

   <matthias_samwald> someone needs to mute his/her phone.

   mscottm: break-out session focused on integrating Bio2RDF with the LODD
   project

   -> [14]http://esw.w3.org/topic/HCLSIG/F2F/2008-10_F2F HCLS IG face2face
   agenda

Summary of ISWC [ericP]

   [scribe was speaking]

Outreach Update [SusieS]

   Susie: SemTech conf is accepting abstracts for spring 2009

   -> [15]http://www.semantic-conference.com/ SemTech

   Susie: if we get enough proposals, we could get our own track
   ... i'll be a cochair for bio ontologies sig at ISMB next year
   ... interested in improvement feedback
   ... working with CDISC and HL7

Summary of Action Items

   [End of minutes]
     __________________________________________________________________


    Minutes formatted by David Booth's [16]scribe.perl version 1.133 (
    [17]CVS log)
    $Date: 2008/11/13 17:13:51 $

References

   1. http://www.w3.org/
   2. http://www.w3.org/2008/11/13-hcls-irc
   3. http://www.w3.org/2008/11/13-hcls-minutes#agenda
   4. http://www.w3.org/2008/11/13-hcls-minutes#item01
   5. http://www.w3.org/2008/11/13-hcls-minutes#item02
   6. http://www.w3.org/2008/11/13-hcls-minutes#item03
   7. http://www.w3.org/2008/11/13-hcls-minutes#item04
   8. http://www.w3.org/2008/11/13-hcls-minutes#item05
   9. http://www.w3.org/2008/11/13-hcls-minutes#ActionSummary
  10. http://users.ox.ac.uk/~zool0770/presentations/2008_11-13_HCLS_Call.pdf
  11. http://openflydata.org/flyui/build/apps/imagemashup2/
  12. http://aws.amazon.com/ec2/#pricing
  13. http://www.w3.org/2001/sw/hcls/
  14. http://esw.w3.org/topic/HCLSIG/F2F/2008-10_F2F
  15. http://www.semantic-conference.com/
  16. http://dev.w3.org/cvsweb/~checkout~/2002/scribe/scribedoc.htm
  17. http://dev.w3.org/cvsweb/2002/scribe/
-- 
-eric

office: +1.617.258.5741 32-G528, MIT, Cambridge, MA 02144 USA
mobile: +1.617.599.3509

(eric@w3.org)
Feel free to forward this message to any list for any purpose other than
email address distribution.