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London Regional Genomics Centre

London Regional Genomics Centre. Next Generation Sequencing Meeting April 1, 2010. DNA Sequencing Facility User Base. The LRGC Sequencing Facility has worked with over 400 labs across Canada. LRGC Sequencing Facility Use. Microarray Facility Users. Microarray. NGS Applications.

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London Regional Genomics Centre

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  1. London Regional Genomics Centre Next Generation Sequencing Meeting April 1, 2010

  2. DNA Sequencing Facility User Base The LRGC Sequencing Facility has worked with over 400 labs across Canada.

  3. LRGC Sequencing Facility Use

  4. Microarray Facility Users

  5. Microarray

  6. NGS Applications • Targeted resequencing (SNP, Indel, CNV) • De novo genome sequencing • Whole transcriptome seq • Small RNAseq • Epigenomics eg. ChIP seq

  7. NGS Technologies • Next Generation Platforms now… • Illumina Solexa • Roche 454 • Applied Biosystems SOLid • Single molecule sequencing coming… • Pacific BioSciences • Helicos • Ion Torrent

  8. NGS Technology Comparison

  9. Needs Assessment • Does the London Scientific Community need/want local access to NGS technology at a core lab? Recruitment tool? • Survey users regarding which applications are required from NGS? • RNA-Seq, DNA-Seq, ChIP-Seq • Other infrastructure • Data storage, bioinformatics, sequence capture device

  10. London Regional Genomics Centre Robarts Research Institute Survey Monkey Summary Spring 2010

  11. Survey Monkey Statistics • Survey: 8 questions • Recipients: 172 • Total Started Survey: 60 (34.9%) • Total Completed Survey: 54 (31.4%) • Last email survey 2004: 12/33 (36.45%)

  12. Satisfaction

  13. Satisfaction

  14. Financial Support Model

  15. Potential New Services

  16. Next-Generation Sequencing

  17. Next-Generation Sequencing

  18. Next-Generation Sequencing

  19. Single Molecule Real Time Sequencing Removes misrepresentation of template introduced during preparation 3 Platforms: • Helicos - hardware cost$999,000 • Pacific Bioscience - Expected platform late 2010/early 2011 • Ion Torrent - Recently announced on March 2nd 2010 - Announced to be “$50,000”

  20. Funding Plan • Strategies to fund the initial purchase • Granting agencies • Trans-faculty; trans-department • Funding for ongoing costs • salaries, software, service contracts

  21. Outcomes for today • Agree on need for NGS • Process for platform selection • Sub-committee involvement • Bioinformatics • Capital • Governance • Ongoing operation

  22. Future Directions • De-briefing from today’s meeting • Timelines for • Software • Hardware • Funding • User and Governance committees • Next meeting…

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