CSB2004 -- Study Group which will lead to the IEEE Working Group.
GOALS: “carrot of improved access”
Results of the Panel discussion (August 18, 2004) and the BSC meeting (August 19, 2004), Stanford, CA.
John Wooley, Manfred Zorn, Sylvia Spengler, John Westbrook, Peter Karp, George Michaels, Phil Bourne,
Gene Myers, Howard Asher, Suzanna Lewis, Richard Mural, Betty Cheng, and Vicky Markstein
Consultants: IEEE Standards Association: Cherry Tom and Bob Davis
Chair: Phil Bourne
Recorder: Betty Cheng
Liaison between IEEE and CSB: Vicky Markstein
Financial Advisor: Ying Xu
Study Group to Evaluate Standards Development Effort: [selection of efforts, criteria for selection in 30 days on teleconf, ask
for meeting sites for GM Jan-Feb. also spring GM – Detroit June ISMB or Madrid ECCB, Annual Meeting Stanford August CSB]
- 1. PharmaGKB: -- Potential DB in need of a standard
- 1. OMG – GR (Object Management Group)
- 2. BioPax -- GR
- 3. Gene Ontology -- GR
- 4. Micro Array Data (FDA requirement)
- 5. Experimental Protocols (George Michaels)
- 6. Data Quality – Benchmarks
- Criteria for Project Adoption:
- 1. Committed to working with the IEEE Bioinformatics Standards Working Group
- i. Attend meetings, donating access to resources,
- 2. Access to users/testers
- 3. Time frame -- 1 to 1.5 year
- 4. Barriers to success well defined
- Recommendations from BSC panel/meeting
- 1. Dialogue with community and with data generators, is essential.
- a. GM suggested approaching instrument manufacturers Affymetrix, Agilent, etc.
- b. Experimental protocols in addition to Data Standards
- 2. Prioritization essential; options are far too many, success lies in early focus.
Basic biology easier than issues around clinical data. Microbes, Molecular Sequence and Structure are shared DOE,
NSF, NIH areas of interest, need to keep in mind where one can make impact early on and can obtain funding. (see 4.)
- a. Audience comment -- Find the PAIN? FIX IT! Data exchange was used to exemplify this issue
- b. Lincoln’s 2002 Charts -- the main issue is the Balkanization of Bioinformatics data. 2004 still
- The bioinformatics community has the resources to address this problem.
- c. Summary: who will use the standard? -- focus on a well-defined group.
- 3. Authority, implementation issue
- a. broad outreach to community
- b. Necessary authority of agencies (DOE, NSF, NIH, NLM, etc), journals, and societies(ISCB and IEEE)
- c. Universal data exchange support from generation to implementation.
- d. The IEEE will provide guidance and resources to support the development process.
- They have extensive experience in getting global adoption for both engineering and IT standards.
- In addition, IEEE will provide legal consultation.
- e. CSB will provide the interface between IEEE and the bioinformatics community.
- 4. Several grass root efforts have begun a standard. BSC might chose one and help them go forward by
offering the IEEE Standards infrastructure.
- 5. Funding, adequate funding to build infrastructure for standards development and user training.
CSB can be the administrative host for funds.