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ENCODE Enc yclopedia o f D NA E lements

ENCODE Enc yclopedia o f D NA E lements. Drosophila ENCODE Workshop December 5, 2004 Bethesda Hyatt. Challenge. Compile a comprehensive encyclopedia of all of the sequence features in the human genome. Approach: Apply lessons learned from the success of the Human Genome Project

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ENCODE Enc yclopedia o f D NA E lements

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  1. ENCODEEncyclopedia of DNA Elements Drosophila ENCODE Workshop December 5, 2004 Bethesda Hyatt

  2. Challenge Compile a comprehensive encyclopedia of all of the sequence features in the human genome. Approach: • Apply lessons learned from the success of the Human Genome Project • Start with well-defined pilot project • Develop and test high-throughput technologies

  3. Phased Approach to ENCODE Phase 1: Pilot Project using Existing Technologies Research Consortium primarily focused on identification of transcription units, but includes other sequence-based functional elements Phase 2: Technology Development Focus on less well-studied functional elements Planned Phase 3:Expanded Pilot Project Solicit new applications in 2-3 years

  4. ENCODE Consortium Goals • Test and compare existing and new methods for exhaustive identification and verification of functional sequence elements in a limited region of DNA (~1% = 30 Mb) • Identify gaps in ability to annotate genome • Set a clear path for scaling up this effort to efficiently and effectively characterize the entire human genome in detail

  5. ENCODE Consortium • Bring together investigators with diverse backgrounds and expertise to work cooperatively • Iterative process with close interactions between computational and experimental work • Share resources and expertise within the Consortium • Work cooperatively to solve problems encountered during the project • Open to all academic, government and private sector scientists interested in the goals of ENCODE project • Open to participants not funded through RFA • Common databases • Common data release policy

  6. Consortium Interactions • Frequent conference calls of all participants • Working groups to solve specific problems • Data Management, Data Resource, Data Release • Frequent meetings to discuss progress • December 2003 • June 2003 • November 2004

  7. ENCODE Portfolio

  8. Additional ENCODE Participants

  9. Additional ENCODE Participants (cont.)

  10. ENCODE for Model Organisms • NHGRI is considering as future initiative • Open discussion with communities • S. cerevisiae • C. elegans • D. melanogaster • Community consensus for project • Experimental advantages of organism • Exploit existing resources and data

  11. ENCODE for Model Organisms • Extend scope to whole genome • Exploit high-throughput technologies using cost-effective strategies • Use experimental advantage of organism to allow discovery and understanding of functional regions that would not be possible with human or other mammalian systems • Inform plans for scale up of human ENCODE

  12. Uncertainties • No current commitment for project • Number of organisms supported • Mechanism • One large project vs multiple projects • Scope of initiative • Descriptive vs function Give us your best ideas for what is possible

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