TEAM BLUE

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TEAM BLUE
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Recommendation Areas

• Scope global and encompassing all of structural
  biology
• Annotation
• Eliminating the backlog
• Going forward
• Outreach
• Face-to-Face
• (Semi)-Automated
• Creative ideas

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Eliminating the BacklogA Modest Proposal

• Each production center must provide either a
  published paper or a baseline annotation page for
  each extant structure (or group of structures)
• Outreach to appropriate experts
• Possible Timeline June 30th 2008?

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Going Forward

• Additional Resources
• Current list represents a rich offering
• Establish a mechanism for identifying gaps and
  attractive offerings for inclusion
• Accuracy/Standards
• Establish QA/QC requirements
• Implement an evidence code system to attribute
  source of annotation information (for both
  providers and users)
• Adopt a Searchable Vocabulary system
• Partnerships Swissprot, SCOP, CATH, etc.
• request prioritization for PSI structures for
  annotation efforts w feedback to PSI centers
• as possible, include targets that can be
  expressed as soluble protein
• high priority for proteins not yet characterized
  (published?)
• Look for ways to improve interactions between
  structural/ computational biologists and the
  experimental biology community

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Face to Face Outreach

• Prototype projects serving as models to
  jump-start community involvement
• Organism yeast (multiple species)
• Protein superfamil(ies)
• kinases/phosphatases, transcription factors, MEGA
  families
• Disease-related areas
• bacterial pathogens, disease-related SNPs, human
  biomes
• Workshops
• annotation jamborees
• speciality meetings, e.g., Gordon Conferences,
  EMBO meetings
• KB workshops tacked on to other meetings
• Speciality meetings
• for annotation providers (Pfam, SwissProt,
  special topics groups)
• specialty topics, e.g., Post-translational
  modifications
• Participate in meetings not focused on structural
  information
• Education outreach/minority outreach
• go to people for more extensive help than
  offered by a Help Desk
• tutorials in analytical methods, e.g., protein
  purification
• Deliverables new target lists, white paper,
  publication(s)

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(Semi)-automated outreach

• Optimize usability of the interface
• Google model
• usability experts
• user survey
• Email alerts to experts
• What we can do for you
• triggered by materials repository, clone
  availability
• PEPCDB/Target DB progress alerts
• PDB deposits
• How do we find experts?
• subscription model
• outreach model

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Funding opportunities

• NIGMS supplements for functional characterization
• ask societies to develop graduate fellowships
• integrate w R01, P01, Center grants
• consulting roles
• new RFAs for integration of structure, function
  and evolution

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Creative ideas

• Grad student competition (whats the prize?)
• relating structures or targets to the biology
• My Space model
• personalized version of the KB - My KB
• recommendation engines e.g., Amazon.com
• Advertise the KB