PhenoMeNal presentation at STFC-ELIXIR Meeting Hinxon
•
0 likes•157 views
This document discusses large scale computing with medical metabolic phenotyping data. It describes how metabolomics measures small molecule metabolites in biological organisms using techniques like NMR and mass spec. Metabolomics data is growing rapidly and being stored in repositories like MetaboLights at EBI. Phenome centers around the world are generating huge amounts of metabolomics data that will require exabytes of storage. The PhenoMeNal project aims to enable large scale computing with medical metabolomics data through collaborations between EBI, other data centers, and phenomics user communities.
![Post Genomic Era
Christoph Steinbeck
European Bioinformatics Institute
(EMBL-EBI)
[O]ur understanding of the human
genome has changed in the most
fundamental ways.The small number of
genes -- some 30,000 -- supports the
notion that we are not hard wired.We
now know the notion that one gene leads
to one protein, and perhaps one disease, is
false.
CraigVenter, June 2001](data:image/gif;base64,R0lGODlhAQABAIAAAAAAAP///yH5BAEAAAAALAAAAAABAAEAAAIBRAA7)
Recommended
More Related Content
Viewers also liked
Viewers also liked (20)
Similar to PhenoMeNal presentation at STFC-ELIXIR Meeting Hinxon
Similar to PhenoMeNal presentation at STFC-ELIXIR Meeting Hinxon (20)
Recently uploaded
Recently uploaded (20)
PhenoMeNal presentation at STFC-ELIXIR Meeting Hinxon
- 1. Large scale computing with medical metabolic phenotyping data Christoph Steinbeck and the PhenoMeNal consortium European Bioinformatics Institute (EMBL-EBI)
- 2. Post Genomic Era Christoph Steinbeck European Bioinformatics Institute (EMBL-EBI) [O]ur understanding of the human genome has changed in the most fundamental ways.The small number of genes -- some 30,000 -- supports the notion that we are not hard wired.We now know the notion that one gene leads to one protein, and perhaps one disease, is false. CraigVenter, June 2001
- 3. Genes are not the full story
- 6. The Metabolome is the most accessible and dynamically changing Molecular Phenotype
- 7. Metabolites: Small molecules in biological organisms
- 8. No biopolymers • No DNA • No Proteins • No Sugar Polymers
- 9. Metabolomics Measures occurrence and concentrations of many small molecules (metabolites) in an organism at once.
- 10. Organism Parts
- 11. Nuclear Magnetic Resonance (NMR) Mass Spec Metabolomics uses a wide-range of analytical techniques
- 15. Untargeted Metabolomics of Cerebrospinal Fluid AD – red; MCI- blue Alzheimer’s Disease (AD), Mild Cognitive Impairment (MCI), Cognitive Normal (CN) AD – red; CN- blue
- 16. 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
- 17. 0597
- 18. MetaboLights http://www.ebi.ac.uk/metabolights open-access, cross-species, cross-application, long-term supported Salek, R.M., Haug, K. and Steinbeck, C. (2013) Dissemination of metabolomics results: role of MetaboLights and COSMOS. Gigascience, 2:8.
- 19. MetaboLights Database Experimental Repository Reference Layer Chemistry Spectroscopy Biology AnalysisTools Primary Literature Primary data and Meta-Data, Spectra, Protocols, Synopses, ...
- 20. Data growth in EBI data repositories
- 21. Data growth in EBI data repositories 3-month doubling time for Metabolomics
- 22. Data growth in EBI data repositories 3-month doubling time for Metabolomics MetaboLights is now the recommended repository for the Nature journals, EMBO journal, PLOS journals, Metabolomics Journal and others
- 23. Global Collaboration in Metabolomics and the BioSciences
- 24. COSMOS COrdination of Standards in MetabolOmicS European FP7 coordination action coordinated by us at EMBL-EBI, Hinxton, Cambridge • Create missing standards & formats • Define workflows for dissemination • Create world-wide data network
- 25. MetabolomeXchange 2014 • Global network for exchange and discoverability of metabolomics data • Includes study as well as reference data
- 26. What’s next?
- 27. Metabolomics can contribute to a better medicine predictive preventive personalizedparticipatory
- 28. •500 Million people in European Union •Full Genomes (soon for less than $1000 p. P.) •Urine/Blood Metabolome < 20 Euros per Patient
- 29. Metabolomics is taking off world-wide
- 30. Phenome Centres popping up all over the world • London • Birmingham • Shanghai • NIH RCMRCs • …
- 32. > 100,000 patient samples / year > Several PetaBytes/year => ExaBytes of human data at moderate scale-up
- 33. Large Scale Computing with Medical Metabolomics Data • EBI lead • H2020 • 3Years • 13 Partners • 8 Mio € • 830 PM • Kick-off 9/15 • H2020 e-infra
- 34. Large Scale Computing with Medical Metabolomics Data
- 36. Large Scale Computing with Medical Metabolomics Data
- 37. PhenoMeNal Cooperative Ecosystem EGI ELIXIR cloud activities BioMedBridges CORBEL BBMRIPhenoMeNal iSphere IndigoDataCloud Phenomics User Community GCE EC2 OpenStack i~HD
- 38. Funding and Collaborators UK Research Councils (BBSRC, MRC) European Commission
- 39. Thanks for your attention