HCLSIG BioRDF Subgroup/Meetings/2010/05-03 Conference Call

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Conference Details

  • Date of Call: Monday May 3, 2010
  • 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), Quick Start: Use http://www.mibbit.com/chat/?server=irc.w3.org:6665&channel=%23hcls for IRC access.
  • Duration: ~1 hour
  • Frequency: bi-weekly
  • Convener: Kei Cheung
  • Scribe: Kei Cheung


Kei Cheung, Scott Marshall, Satya Sahoo, Lena Deus, Michael Miller, Don Doherty


  • Introduction
  • Gene list RDF representation
  • iPhone demo


Lena asked whether the iphone app can be run as a regular web app

Don: the current implementation only works for iphone. There may be ways to make it run both as an iphone app and web app.

Kei: a separate web demo can be implemented if someone is interested

Scott pointed out the faceted browsing in AIDA.

Jun’s still recovering from the www conference trip. Satya gave an update on genelist RDF representation.

Satya also attended the sci. discourse conf call to give an update, as Jun and Satya are liaising with Sudeshna between biordf and sci. disc tasks.

Kei pointed out the current biordf task has a focused scope that explores query federation based on neuroscience microarray gene lists. The RDF graph/owl ontology is currently based on small genelists and their limited context included in the several neuroscience microarray examples.

Scott and Michael pointed out that there are folks who might be interested in genelist-based data federation (e.g., Chris Stoeckert, Helen Parkinson, John Quackenbush …). Some of them may be present at ISMB 2010.

The collaboration with sci. disc has a broader context that should have little overlap with the current focused query federation task.

Lena proposed a query federation scenario involving genelists and diseasome from the Berlin KB sparql endpoint.

Scott pointed out HCLS KB may have additional neuroscience annotation to be federated.

Lena also looked at some other datasets in Bio2RDF.

Kei: it would be nice if multiple datasets can be federated.

Don asked Lena to provide some description so he can see how feasible to implement an iphone demo of this federation.

Kei: what is the status on shared name?

Scott: slow but making progress.

Satya: how shared name URI work for OWL ontology?

Scott: sometimes not straightforward

Satya had experience with LSID and wonder how LSID might relate to shared name initiative