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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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Presentation Transcript
slide1

London Regional Genomics Centre

Next Generation Sequencing Meeting

April 1, 2010

dna sequencing facility user base
DNA Sequencing Facility User Base

The LRGC Sequencing Facility has worked with over 400 labs across Canada.

ngs applications
NGS Applications
  • Targeted resequencing (SNP, Indel, CNV)
  • De novo genome sequencing
  • Whole transcriptome seq
  • Small RNAseq
  • Epigenomics eg. ChIP seq
ngs technologies
NGS Technologies
  • Next Generation Platforms now…
    • Illumina Solexa
    • Roche 454
    • Applied Biosystems SOLid
  • Single molecule sequencing coming…
    • Pacific BioSciences
    • Helicos
    • Ion Torrent
needs assessment
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
slide11

London Regional Genomics Centre

Robarts Research Institute

Survey Monkey Summary

Spring 2010

survey monkey statistics
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%)
single molecule real time sequencing
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”

funding plan
Funding Plan
  • Strategies to fund the initial purchase
  • Granting agencies
  • Trans-faculty; trans-department
  • Funding for ongoing costs
    • salaries, software, service contracts
outcomes for today
Outcomes for today
  • Agree on need for NGS
  • Process for platform selection
  • Sub-committee involvement
    • Bioinformatics
    • Capital
    • Governance
    • Ongoing operation
future directions
Future Directions
  • De-briefing from today’s meeting
  • Timelines for
    • Software
    • Hardware
    • Funding
  • User and Governance committees
  • Next meeting…