HCLSIG BioRDF Subgroup/Meetings/2009/09-14 Conference Call

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Conference Details

  • Date of Call: Monday September 14, 2009
  • Time of Call: 11:00 am Eastern Time
  • Dial-In #: +1.617.761.6200 (Cambridge, MA)
  • Dial-In #: + (Nice, France)
  • Dial-In #: +44.117.370.6152 (Bristol, UK)
  • Participant Access Code: 4257 ("HCLS")
  • IRC Channel: irc.w3.org port 6665 channel #hcls (see W3C IRC page for details, or see Web IRC)
  • Duration: ~1 hour
  • Frequency: bi-weekly
  • Convener: Kei Cheung
  • Scribe: Kei Cheung


Kei Cheung, Eric Prud'hommeaux, Matthias Samwald


Jun Zhao


  • Introduction [Kei]
  • HCLS KB upate [Matthias, Adrian]
  • CM journal special issue [Kei]
  • F2F meeting -- biordf [All]
  • Microarray use case -- [All]


<matthias_samwald> http://hcls.deri.org/atag/explorer/

<kei> this demo is currently accessing hcls kb at deri

<kei> Matthias: more clever way of ranking by relevance is needed

<kei> Matthias: sparql query can be used to rank relevance easily

<kei> I'll play with it more

<kei> hcls kb update

<kei> Matthias: subset of dbpedia with mappings to MeSH was loaded into the HCLS kb at DERI

<kei> Matthias: labels and comments and definitions

<kei> Matthias: taxonomy

<kei> Matthias: in addition to mappings, atags extracted from literature were added to the HCLS kb with links to MeSH and SKOS

<kei> this may be applicable to the microarray use case.

<kei> Matthias: copyright issue -- need to be cautious

<kei> Matthias: migrating the kb to an upgraded system

<kei> Matthias: neurocommon KB is loaded into Virtuoso with specific loading program which is currently not working with Virtuoso 6

<kei> Matthias: neurocommon KB is working on it to fix this problem

<kei> Chinese Medicine journal special issue:

<kei> a special issue on semantic web for chinese medicine was announced to hcls group

<kei> the work that is currently explored in LoDD might be a good candidate paper

<kei> additional papers are welcome. no publication costs need to be paid by authors

<kei> deadline is Jan 31, 2010, but earlier submission is encouraged (early accepted papers can be published earlier).

<kei> F2F meeting

<kei> suggestions are welcome in terms of what to do for biordf group at f2f meeting

<kei> microarray use case update

<kei> Helen is working on the neuro gene expression atlas with a possible release on Oct 1

<kei> Eric made some contact with Helen's student (Talaai?) -- some example code was sent to the student

<kei> Eric: hasn't heard back from the student

<kei> Eric: relational/sparql mapping -- create a demo for federated query (like the COI example)

<kei> Eric: needs a relational database dump or direct access to the relational database storing the neuro gene expression atlas data

<kei> Eric: is it possible to have a unix account on an EBI machine for deploying code to access the new altas database?

<kei> will follow up with Helen

<kei> ask Matthias to review the use cases and questions