SDIWG:Meeting Minutes 20080222

Agenda: NCBC Joint Working Group Meeting

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Notes

Friday February 22, 2008: 2:30 -- 3:30 PM EST
Please contact Peter Lyster for information Peter Lyster
SDIWG Meetings Page
Save the date for the next SDWIG tcon/Connect, three months from now: Friday May 16, 2008

Tcon DRAFT Agenda

• Roll Call/Note-taker (Henry Chueh) (5 min)
• Minutes from most recent SDIWG tcon Nov 16, 2007 (5 min)
• NCBC All Hand Meeting, 2008. Planning & Brainstorm discussion (Peter, Karin, All)
• Status check on three working groups: Biositemaps Resourceome, Scientific Ontologies, NCBC Driving Biological Projects Interactions and Impact
• Demo on Biomedical Resource Ontology (NCBO staff) which is stable development environment for the BRO and repository in BioPortal. This is a key component of the Biositemaps effort.
  • Overview of white paper (‘the biositemaps concept’) (Daniel, Ivo, Peter)
  • Overview of (i) collaborative development environment for BRO and (ii) BioPortal repository of BRO (how is BRO accessed through API?) (Daniel)
  • Overview of how iTools accesses the current corpus of three proto-biositemaps (google”filtetype:xml biositemap”). (Ivo)
  • Overview of plan for next 2 to 4 months (Peter)
    • (1) In the next two months NCBO develops a stable platform for content development and content repository in bioportal relating to the resource ontology, culminating in ½ to 1 day tcon with authorized seven Center reps to finalize v1.0 resource ontology (I may add rep from NITRC and NIF, Bill Bug). NCBO is generating and executing the plan for the ‘stable platform’
    • (2) After that I call each PI and get personal commitment to create biositemaps.xml content on their web sites.
• Upcoming meetings: AMIA translational, Zac, ...
• NCBC Consortium authorship policies (Peter; Open Discussion with output a list of bullet ideas)
• Discussion of Biositemaps white paper and of authorship (see more details in 'Appendix' below).
• Next 2 meeting dates set
• Questions/Information Sharing

Appendix: Biositemaps white paper

• Biositemaps Resourceome (Ivo Dinov, Daniel Rubin, Will Schroeder, Beth Kirschner, Karen Skinner, Zohara Cohen, Bill Bug, Peter Lyster)
  • The biositemaps white paper presents description of prototype for distributed architecture to address (i) locating, (ii) querying, (iii) composing or combining, and (iv) 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/
  • TBD: Long-term plan for maintenance of schema and resource ontology (hosting, versioning, ownership,...). Converge on contents of schema and resource ontology with appropriate parties. This will amount to a v1.0 release (i.e., figure out where to stop now and leave extensions to a later date). Resolve issues of locating the biositemaps content (hard-wired, crawl,...)
  • Status of the NCBC iTools, which is uses the biositemaps. (production) http://www.loni.ucla.edu/iToolssvc/ncbc_iTools.html/http://iTools.loni.ucla.edu and (dev) http://netulla.loni.ucla.edu:8080/iToolssvc/ncbc_iTools.html/http://www.loni.ucla.edu/twiki/bin/view/CCB/iTools.

Minutes

Note taker: (Henry Chueh) [Suggested order of note takers for future meetings: Chueh (this one); Sherman; Schroeder; Floratos; Rubin; Jags, Dinov]

• Review of Sept 21, 2007 Minutes
• Attendees:
• Go over dates for next year's meetings:
  • AMIA Summit on Translational Bioinformatics, San Francisco, http://www.amia.org/inside/releases/2007/translationalbioinformaticssummit_pr2007.pdf, March 10-12 2008
  • Health Informatics April 11, 2008, Boston, MA - Health Informatics (Zak?) Need a link.
  • NCBC All Hands Meeting, date August 13-15, Bethesda
• SDWGI meets once every 3 months 11:30 AM (Pacific), third Fri of the month.