Pistoia Alliance Sequence Services Phase 2 Overview

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Simon Thornber, project lead for the Pistoia Alliance Sequence Services Project, provides details on the goals and deliverables for Phase 2 of the project. The presentation was delivered at the Pistoia Alliance Annual Conference in Boston, MA, in April 2012.

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  • I hope the oral presentation brought out something that these slides did not because I came here with a genuine desire to learn something about this but these slides just aren't up to the task. Simply a pile of jargon- and cliche-ridden screen fillers with a predictable selection of graphs pulled from the internet adorned with such hackneyed phrases as 'data deluge'. A total waste of time and storage space obviously written by a big company empty suit type!
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Pistoia Alliance Sequence Services Phase 2 Overview

  1. 1. Pistoia – Sequence Services 2 24th April 2012 Simon Thornber (Workgroup Chair)
  2. 2. Setting the Scene• Phase 1 (a quick reminder).•Phase 2 Overview.• The Pistoia Approach.
  3. 3. Phase 1World Class Bioinformatics SoftwareAdd private dataBusiness level security / cloud hosted Ethical Hack
  4. 4. The data deluge Launch of the 454 LifeSciences Pyrosequencing machine Taken from the Elixir business case
  5. 5. (Mb/$) in a corporation
  6. 6. Open‐Source• Some of the best NGS software is open‐source. •EBI / Broad Institute. (funding models /  philosophies)  • Great software written by people who use it.• Where do you turn to for support? •Industry cannot cross their fingers & hope for  community support on a project wiki.• The politics of Open Source projects.
  7. 7. SecurityOpen‐Source Software is not always written with security concerns as a priority. • We saw this from Phase 1. – was written  to help good people do great things. • A major part of testing in Phase 2. • Pistoia is not going to publish the findings. • Nothing was found that isn’t fixable. • Some have more work to do than others.
  8. 8. Global & Externalised ProjectsRise in the number of global projects often with 3rd parties contributing.This makes cloud hosted platforms attractive, and can reduce the risk of allowing 3rd parties inside corporate firewalls.
  9. 9. The Pistoia Approach• A common set of requirements from a number of Pharmaceutical Companies.• Shared risk funding to help kick‐start commercial services in this space. Speak with a single voice. And do more…
  10. 10. Phase 2 – System Use Cases 10
  11. 11. Phase 2 Data Loading Data Management Simple Analysis pipelines Ease of use Secure Ethical hack 11
  12. 12. 3 Different approaches to this challenge.

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