SDIWG:Meeting Minutes 20080516

NCBC Joint Working Group Meeting

Top page of SDIWG web site

Notes

Friday May 16, 2008: 2:30-3:30 PM EST
Please contact Peter Lyster for information Peter Lyster
SDIWG Meetings Page
Save the date for the 2008 NCBC AHM: Friday August 13-15, 2008

Tcon Agenda

• Roll Call/Note-taker (Joy Ku) (5 min)
• Minutes from most recent SDIWG tcon Feb. 22, 2008 (5 min)
• NCBC All Hands Meeting, August 13-15, 2008. Logistics, Planning & Brainstorming discussion (Peter, Karin, All)
• Status check on three working groups:
  • Biositemaps Resourceome
  • Scientific Ontologies
  • NCBC Driving Biological Projects Interactions and Impact
• State of Biositemaps and Biositemaps white paper v3.2 (Peter, Ivo, Daniel) and Biomedical Resource Ontology (BRO)
• Programmatic and translational-research interactions with other initiatives (CTSA, BIRN, and so on)
• Overview of plan for next 2 months (Peter)
• State of the Roadmap Initiative
• Other Progress reports
• Next 2 meeting date (2008 NCBC AHM) - we may need a prep-meeting in early August!
• Questions/Information Sharing

Minutes

• Note taker: [Suggested order of note takers for future meetings: Joy Ku (this one); Schroeder; Floratos; Rubin; Jags, Dinov, Murphy]
• Review of Feb 22, 2008 Minutes
• Attendees: Peter Lyster (NIH/NIGMS), Joy Ku (Simbios), Jeanette Schmidt (Simbios), Natasha Noy (NCBO), Mark Musen (NCBO), Csonger Nyulas (NCBO), Ivo Dinov (CCB), David States (NCIBI), Zac Kohane (i2b2), Brian Athey (NCIBI), Jim Cavalcoli (NCIBI), Beth Kirschner (NCIBI), Karin Remington (NIH/NIGMS), John Matochik (NIH/NIAAA), Yuan Liu (NIH/NINDS), Jennie Larkin (NIH/NHLBI), Aris Floratos (MAGNet), Will Schroeder (NA-MIC), German Cavelier (NIH/NIMH)
• Biositemaps Resourceome Update
  • Goal is to get the first version of the biomedical resource ontology (BRO) finalized and approved by the seven centers within the next month, before the all-hands meeting. Currently, the group is streamlining it—they want flatten it out, simplify it. The current decision is to develop the BRO and delay any attempts to reconcile it with other ontologies that exist. This is just one field in the biositemap.xml file. This could provide direction for the SDIWG Ontology working group.
  • Need a tool for creating the annotations. This is being created by NCBO. Natasha will take the lead with Ivo and Bill Bug. David is to be added to this list. Natasha is creating the environment using Protégé. The first user will be iTools. After finishing this, the team will build it out to the 7 centers. Send Peter an email if you want to be involved earlier.

Action Items

• TBD.

Appendix: Biositemaps white paper

The biositemaps Biositemaps white paper v3.2 presents description of prototype for distributed architecture to address

• locating,
• querying,
• composing or combining, and
• mining software tools and information resources on the Internet.

Each site which intends to contribute to the inventory instantiates a file on its Internet site ‘biositemap.xml’ which conforms to a defined schema and is tagged by a resource ontology. The prototype schema may be found at http://www.ncbcs.org/biositemaps/biositemaps-v04.xsd A good reference for XML editors is at http://en.wikipedia.org/wiki/Xml_editor e.g., we are using XMLmind. The prototype resource ontology may be found at http://bioontology.org/projects/ontologies/SoftwareOntology/.

• The Biomedical Resource Ontology (BRO) (see BRO Requirements document) is an extensible terminology for online electronic resources, intended to be an enabling technology for tools which improve query and access to online resources.
• Further postings will be made at the NCBC portal at http://www.ncbcs.org/biositemaps/
• Status of the NCBC iTools, which is uses the biositemaps. http://iTools.loni.ucla.edu