2014 11-26 EATRIS biomarkers platform meeting, Amsterdam, Organising technological infrastructure
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Transcript of 2014 11-26 EATRIS biomarkers platform meeting, Amsterdam, Organising technological infrastructure
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Organising technical infrastructures:
EATRIS Biomarker Platform Meeting
Amsterdam 26 November 2014
Professor in Personalized Healthcare Head Radboud Center for Proteomics, Glycomics and Metabolomics Coordinator Radboud Technology Centers
Head Biomarkers in Personalized Healthcare
Prof Alain van Gool
Radboudumc Technology Centers
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My background
8 years academia (NL, UK)
(molecular mechanisms of disease)
13 years pharma (EU, USA, Asia)
(biomarkers, Omics)
3 years applied research institute (NL, EU)
(biomarkers, personalized health)
3 years university medical center (NL)
(personalized healthcare, Omics, biomarkers)
1991-1996 1996-1998 2009-2012
1999-2007 2007-2009 2009-2011
2011-now
2011-now
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Radboud university medical center
• Nijmegen, The Netherlands
• Mission: “To have a significant impact on healthcare”
• Strategic focus on Personalized Healthcare through “the patient as partner”
• Core activities:
• Patient care
• Research
• Education
• 11.000 colleagues
• 52 departments
• 3.300 students
• 1.000 beds
• First academic centre outside US to fully implement EPIC
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Takehome message
• Strategic focus on implementing Personalized Healthcare
• Strong technological and methodological infrastructure
• Continuous exploration of functional networks
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Patient
Radboud Personalized Healthcare
A significant impact
on healthcare
Molecule
Population
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Personalized Healthcare @ Radboudumc
People are different Stratification by multilevel diagnosis
+ Patient’s preference of treatment
Exchange experiences in care communities
Select personalized therapy
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Translational medicine @ Radboudumc
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Personalized genomic diagnostics
{Nature, July 17 2014, 511: 344-}
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2012
Patient Targeted
Metabolic
screen
Targeted
gene
analysis
Diagnosis
+ follow-up
2013 / 2014
Patient
Whole
exome
sequencing Targeted
confirmatory
metabolite +
enzyme
testing
Diagnosis
+ follow-up
Targeted assays vs holistic approach
Next
generation
metabolic
screening
Times are changing… add functional genome diagnostics
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Human samples
Plasma, CSF (urine) Controls vs. patient
QTOF Mass Spectrometry
- Reverse phase liquid chromatography - Positive and negative mode - Features
XCMS Alignment Peak comparison > 10,000 Features
Personalized metabolic diagnostics
Xanthine Uric acid
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Full metabolite profile: Highly suspected of xanthinuria
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Research Biomarkers Diagnostics
Integrated Translational Research and Diagnostic Laboratory 220 fte, yearly budget ~ 28M euro. Close interaction with Radboudumc scientists and external partners
Specialities: • Proteomics, glycomics, metabolomics • Enzymatic assays • Neurochemistry • Cellulair immunotherapy • Immunomonitoring
Areas of disease: • Metabolic diseases • Mitochondrial diseases • Lysosomal /glycosylation disorders • Neuroscience • Nefrology • Iron metabolism • Autoimmunity • Immunodeficiency • Transplantation
In development: • ~500 Biomarkers • Early and late stage • Analytical development • Clinical validation
Assay formats: • Immunoassay • Turbidicity assays • Flow cytometry • DNA sequencing • Mass spectrometry • Experimental human (-ized)
invitro and invivo models for inflammation and immunosuppression
Validated assays*: • ~ 1000 assays • 3.000.000 tests/year
Areas of application: • Personalized healthcare • Diagnosis • Prognosis • Mechanism of disease • Mechanism of drug action
Department of Laboratory Medicine
*CCKL accreditation/RvA/EFI
www.laboratorymedicine.nl
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Orientation across the spectrum from molecule to man to population
Ori
enta
tio
n a
cro
ss
the
spec
tru
m o
f d
isea
ses
PI
Research theme
Te
chn
olo
gy
C
ente
rs
Research support by Technology Centers
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Radboudumc Technology Infrastructure
Get organised:
1. What technological expertise do we have and should we have ?
2. How should we organise this ?
3. How will we communicate this ?
Activities: • Make inventories on current state and desired future state. • Work with technology coordinators + departments (research, clinical, strategy,
communication , valorisation). • Include input from research themes. • Organize monthly full team meetings + many 1:1 meetings. • Discussed output with research institutes, executive board. • Implementation structure 1.0 by 1H2014. Improve in version 2.0 1H2015.
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External role
Internal role
• Knowledge hub for technological expertise • Maximise use of available technical capabilities and knowledge (‘duurzaamheid’) • Advise scientists with technological expertise • Advise management on strategic investments and opportunities • Drive innovations by working with each other, theme’s and Valorisation
• Easy access to Radboudumc’s technological expertise • Represent Radboudumc as one in external technology networks • Increase funding (grants, contract research) with Valorisation
Internal / external role
Radboudumc Technology Centers
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Technology Platforms UMC St Radboud
(Potential) Technology Platforms
Genomics
RPC
CMBI PRIME
MIC
CDL
CRCN
Radboud Biobank Malaria lab
Flow cytometry
TR&CT
TNU
MITeC
PDRC
(based on quick scan Radboudumc Technology Platforms, Sept 2013)
December 2013
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Radboudumc Technology Centers
Genomics
Bioinformatics Animal studies
Flow cytometry
Translational neuroscience
Image-guided treatment
Imaging
Microscopy
Biobank
Data stewardship
Proteomics Glycomics
Metabolomics
Radboudumc Technology
Centers
GMP products
Clinical trials
January 2014
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• Align with the needs of the Research and Education, and contribute to output and quality of those
• Organise each Technology Center as a single portal • Add other Technology Centers when needed and useful • Keep improving efficiency and funding
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Radboudumc Technology Centers Form and improve organisation
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www.radboudumc.nl/research/technologycenters
Genomics
Bioinformatics
Animal studies Translational
neuroscience
Image-guided treatment
Imaging
Microscopy
Biobank
Health economics
Mass Spectrometry
Radboudumc Technology
Centers Investigational
products
Clinical trials EHR-based
research
Statistics
Human physiology
Data stewardship
Molecule
Flow cytometry
(August 2014)
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• Proteins • Metabolites • Drugs • PK-PD
• Preclinical • Clinical
• Behavioural • Preclinical
• Animal facility • Systematic review
• Cell analysis • Sorting
• Pediatric • Adult • Phase 1, 2, 3, 4
• Vaccines • Pharmaceutics • Radio-isotopes • Malaria parasites
• Management • Analysis • Sharing • Cloud computing
• DNA • RNA
• Internal • External
• HTA • Evidence-based
surgery • Field lab
• Statistics • Biological • Structural
• Preclinical • Clinical
• Economic viability
• Decision analysis
• Experimental design • Biostatistical advice
• Electronic Health Records • Big Data • Best practice
• In vivo • Functional
diagnostics
About 240 dedicated people working in 17 Technology Centers, ~1500 users (internal, external), ~130 consortia
www.radboudumc.nl/research/technologycenters/
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Cross-technology interactions
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Input-output Radboudumc Technology Centers
In
Scientist
Industry
Science Lectures
Papers
Grants
Funding
Valorisation
Diagnostics
Commercial
Patents
Out
Patient
Spin-off companies
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www.radboudumc.nl/research/technologycenters/
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Working together on the Radboud campus
(Spin-out) companies
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Radboud Research Facilities
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www.ru.nl/radboudresearchfacilities/
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Working with other Technology Networks Region, nation, Europe, world
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Working through multi-partner projects
Standardisation, harmonisation, knowledge sharing needed in:
1. Assay development
2. Clinical validation
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Example: Biomarker Development Center
Open Innovation Network !
Roadmap Molecular Diagnostics
PPP Grant 4.3M Euro
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Next
• Keep improving Technology Center infrastructure • Technology • Collaborations • Impact (research, education, patient care) • Finances
• Continuous exploration of functional networks