Large scale computing with medical metabolic phenotyping data

Christoph Steinbeck and the PhenoMeNal consortium

European Bioinformatics Institute(EMBL-EBI)

Genes are not the full story

Nutrition

Exercise

Disease

AgeDrugs

Environment

Phenome/ Exposome

The Metabolome is the most accessible and

dynamically changing Molecular Phenotype

Investigating Metabolomes at Large Scale

to disentangle the exposome conundrum

Phenome Centres popping up all over the world

• London

• Birmingham

• Shanghai

• United States NIH RCMRCs

• …

Time Scales: Patient Journey vs Population Modelling

Patient Journey

> 100,000 patient samples / year> Several PetaBytes/year

=> ExaBytes of human data at moderate scale-up

MetaboLights Database

Experimental Repository

Reference Layer

Chemistry Spectroscopy Biology

Ana

lysi

s To

ols

Primary Literature

Primary data and Meta-Data, Spectra, Protocols, Synopses, ...

Data growth in EBI data repositories

3-month doubling time

for Metabolomics

MetaboLights is now the recommended repositoryfor the Nature journals,

EMBO journal, PLOS journals, Metabolomics

Journal and others

Automated Biocrates to MetaboLights

Shareprivateprepublicationstudieswithreviewersandothertrustedparties.

BiocratesXMLwithrawdataisannotatedanduploaded

What’s next?

Metabolomics can contribute to a better medicine

predictivepreventive

personalizedparticipatory

Large Scale Computing with Medical Metabolomics Data

• EBI lead• H2020• 3 Years• 13 Partners• 8 Mio €• 830 PM• Kick-off 9/15• H2020 e-infra

Large Scale Computing with Medical Metabolomics Data

Why Research

Infrastructures?

Large Scale Computing with Medical Metabolomics Data

Funding and CollaboratorsUK Research Councils (BBSRC, MRC) European Commission

Thanks for your attention