HCLSIG BioRDF Subgroup/Meetings/2010/08-02 Conference Call
Conference Details
- Date of Call: Monday, August 2, 2010
- Time of Call: 11:00 am Eastern Time (5 pm CET)
- Dial-In #: +1.617.761.6200 (Cambridge, MA)
- Dial-In #: +33.4.26.46.79.03 (Nice, France)
- Dial-In #: +44.203.318.0479 (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
- Scribe: Kei
Attendees
Kei Cheung, Lena Deus, Matthias Samwald, Jun Zhao
Agenda
- Introduction (Kei)
- Gene list representation (Lena, Jun, Michael, Satya, Scott)
- Paper (All) (e.g.,ISWC 2010: http://wiki.knoesis.org/index.php/SWPM-2010)
Minutes
kei: possible paper submission
Kei: http://wiki.knoesis.org/index.php/SWPM-2010
jun: paper submission deadline is Aug 27
kei: format and size of paper?
jun: 6 page IEEE format
jun: demo paper and short papers -- 2 pages.
jun: perhaps we can get one-week extension at the most
kei: the group is interested in submitting a regular paper
lena: http://ibl.mdanderson.org/~mhdeus/sparql_federation/endpoint2.php
lena: Lena shows an example of sparql query (what genes are expressed in a given region)
kei: it may be interesting to also show genes that are upregulated in one sample while being down regulated in another sample
kei: other types of data that can be integrated with gene expression data include pathways, diseases, drugs, etc
mathias: it’s possible to include lodd data sets
matthias: stitch data (accessible through d2r) -- protein -- drug --molecules
matthias: there is a SPARQL endpoint for STITCH at Berlin: http://www4.wiwiss.fu-berlin.de/stitch/
kei: atag could be added to the paper
jun: the open provenance model: http://code.google.com/p/opmv/
kei: provenance information could be captured based on standard models
jun: identify some sentences that are related to provenance
kei: initial list of authors (not ordered yet): lena, jun, scott, kei, michael, satya, matthias
lena: will send out an email about the paper
matthias: we should identify people responsible for writing different sections
kei: let’s meet on a weekly basis until the end of this month.