PhenoMeNal: Large scale computing with medical metabolic phenotyping data
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The document discusses the advancement of large-scale computing in medical metabolomics, highlighting the integration of various phenotyping data and the emergence of phenome centers globally. It outlines the objectives of the Phenomenal project, which aims to create a sustainable e-infrastructure for processing vast quantities of metabolomics data while ensuring data fairness and privacy. Furthermore, it emphasizes the collaborative efforts and funding sources involved in this initiative.
PhenoMeNal: Large scale computing with medical metabolic phenotyping data
- 1. Christoph Steinbeck and the PhenoMeNal consortium European Bioinformatics Institute, Hinxton Friedrich-Schiller-University, Jena Large scale computing with medical metabolic phenotyping data
- 3. Reaction times following external change • Genetics (decades, centuries…) • Epigenetics (days, month, years,…) • Gene Expression (hours) • Metabolism (seconds)
- 4. The Metabolome is the most accessible and dynamically changing Molecular Phenotype
- 5. Untargeted Metabolomics of Cerebrospinal Fluid AD – red; MCI- blue Alzheimer’s Disease (AD), Mild Cognitive Impairment (MCI), Cognitive Normal (CN) AD – red; CN- blue
- 6. Untargeted Metabolomics of Cerebrospinal Fluid AD – red; MCI- blue Alzheimer’s Disease (AD), Mild Cognitive Impairment (MCI), Cognitive Normal (CN) AD – red; CN- blue Basis for a diagnostic tool
- 7. Metabolomics On The Rise Source: Google Scholar
- 8. Phenome Centres popping up all over the world • London • Birmingham • Shanghai • NIH RCMRCs • …
- 10. > 100,000 patient samples / year > Several PetaBytes/year => ExaBytes of human data at moderate scale-up
- 11. Metabolomics On The Rise
- 12. How do you make sense of all that data?
- 13. Make data FAIR - Share them - Free and Open
- 14. •500 Million people in European Union •Full Genomes (soon for less than $1000 p. P.) •Urine/Blood Metabolome < 20 Euros per Patient
- 15. Large Scale Computing with Medical Metabolomics Data • EBI lead • H2020 • 3Years • 13 Partners • 8 Mio € • 830 PM • Kick-off 9/15 • H2020 e-infra
- 16. An e-infrastructure for Large Scale Computing with Medical Metabolomics Data
- 18. PhenoMeNal Objectives 1. Integrate existing open source tools, resources into a secure and sustainable e-Infrastructure
- 19. PhenoMeNal Objectives 2. Operate and consolidate the PhenoMeNal e- infrastructure based on existing internal and external HPC (High-performance computing) resources
- 20. PhenoMeNal Objectives 3. To improve and scale-up tools used within the infrastructure to cope with very large datasets 4.To establish technology for a water-tight audit trail
- 21. PhenoMeNal Objectives 5. To establish privacy-protection methods 6.To foster the worldwide adoption of PhenoMeNal 7. To develop a model to ensure sustainability of the PhenoMeNal network
- 23. Large Scale Computing with Medical Metabolomics Data
- 25. Large Scale Computing with Medical Metabolomics Data
- 27. Funding and Collaborators UK Research Councils (BBSRC, MRC) European Commission