ELIXIR and Industry presentation given by Jerome Wojcik, CEO, Quartz Bio at ELIXIR Launch event 18th December 2013
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ELIXIR is a vital resource for the life sciences industry, providing a network of bioinformatics expertise that compensates for limited internal R&D capabilities within companies. It aims to enhance data management and establish bioinformatics standards, which can save time and improve data quality in biomedical research. ELIXIR also focuses on training and recruiting skilled bioinformaticians to support the growing need for expertise in handling complex biological data.
ELIXIR and Industry presentation given by Jerome Wojcik, CEO, Quartz Bio at ELIXIR Launch event 18th December 2013
- 1. ELIXIR and Industry Jerome Wojcik, CEO, Quartz Bio 18 December 2013 European Life Sciences Infrastructure for Biological Information www.elixir-‐europe.org
- 2. Outline • Why ELIXIR is important for the Industry? • How the Industry can contribute to ELIXIR? 2
- 3. Life Sciences Industry Landscape Biomedical Biotechnology Agriculture Nutrition Cosmetics … Company size 1 – 100’000 Internal Bioinformatics capacity 0 – 100
- 4. A Career Path of a Industry Bioinformatician … • 1999: Ph.D. in Biology • 2000-‐2005: Director of IT and Bioinformatics in a Biotech company • 2005-‐2012: Director of Bioinformatics in a Pharma company • 2012-‐: CEO and Founder of a clinical bioinformatics SME 4 IT: Information Technology SME: Small/Medium Enterprise
- 5. … and its Dependency on Public Infrastructure Proteomics • Definition of a protein-‐protein interaction standards Genomics • Use of public databases • Collaboration with HPC centres Precision Medicine • Contributor to open-‐source tools • Actively recruiting young talents 5 HPC: High Performance Computing
- 6. Industry as a Consumer of Bioinformatics Compute Training Data Standards 6 Tools
- 7. Why ELIXIR matters for Industry Consumers? • Life science companies usually have limited internal R&D bioinformatics resources. They have to rely on external expert resources. ELIXIR is a network of expertise • External dependencies are a risk for industry if they are not stable. Maintenance over time of a high-‐quality relationship is key. ELIXIR has the critical mass • Industry prefers smooth and light administrative processes. ELIXIR is the unique European contact point 7 Quality Sustainability Efficiency
- 9. I plan to pull the mineR package from github to parse the dbOmic database uploaded on our sFTP server by our collaborator (…) 9 ?
- 10. I plan to liaise with ELIXIR 10 Ok!
- 11. Only a Consumer? • Industry releases tools to the public domain and sponsors foundations that maintain these tools • Industry publishes • Development of the Open-‐source mindset in the Industry • Up to Open Data? 11
- 12. My 2 most important Current Needs 2. Data management 1. Man power 12
- 13. Data Management: Key and Time-‐consuming • Personal experience: 40% of the workload in a fee-‐for-‐ service project is spent on biomarker data management, i.e. transferring, checking, integrating, standardising data • This step is key as the quality of the input data is the first limiting factor of the quality of the overall analysis • The use of unanimously accepted Standards will dramatically speed-‐up the data management process 13
- 14. Use Case: CDISC for Clinical Data • In July 2004, FDA Commissioner L.M. Crawford announced the desire of the FDA to receive data in a standard format, the CDISC SDTM "The importance of a standard for the exchange of clinical trial data cannot be overstated," said Dr. Crawford, "FDA reviewers spend far too much valuable time simply reorganizing large amounts of data submitted in varying formats. Having the data presented in a standard structure will improve FDA's ability to evaluate the data and help speed new discoveries to the public.” • The CDISC format is now widely adopted by the Pharma Industry ELIXIR can set the Bioinformatics standards that will save time to all analysts 14
- 15. What is the Value of Bioinformatics? • Industry aims at creating Value • Where does the value come from in bioinformatics? • Structured Databases, Tools, Standards, and Computers are facilitators and accelerators. They provide Value by saving time and increasing Quality. • People are from far the most important. Their expertise and experience, and the time they spent exploring data, are instrumental! Life Sciences need more trained bioinformaticians 15
- 16. Education is always a Good Investment • Training bioinformaticians • Technical & scientific trainings • Cultural trainings: • open-‐source • use of standards • collaborative developments • Educating decision-‐makers 16
- 17. We have the $1M budget. Cannot you take on your internal resources to deal with the data? I need this $1M new sequencer and 2 FTEs to analyse the data 17
- 18. ELIXIR, a Modern Framework for Research • Many large Life Sciences programs rely on Big Data • « OMICS data »: genetics, transcriptomics, proteomics, metabolomics… • Examples are the EU-‐funded programs, e.g. FP7, IMI, H2020 • The success of such programs is driven by 2 key factors: • Good collaboration between Academia and Industry • Capacity to draw the opportunity from generated big data ELIXIR offers collaborative bioinformatics framework that meets both requirements 18
- 19. ELIXIR and the Industry: Perspectives Compute Training Data Tools Standards 19
- 20. Thank you for your attention jerome.wojcik@quartzbio.com www.quartzbio.com 20