Transcript Fundamental knowledge and basic tools for functional

FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Fundamental knowledge and
basic tools for functional
genomics in all organisms
Meeting of the National Contact Points
23/10/2002 Brussels
Indridi Benediktsson
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
7 Thematic Priorities
M€
1
Life sciences, genomics and biotechnology for health
2255
2
Information society technologies
3625
3
Nanotechnologies and nano-sciences, knowledgebased multifunctional materials & processes
1300
4
Aeronautics and space
1075
5
Food quality and safety
685
6
Sustainable development, global change and ecosystems
7
Citizens and governance in a knowledge-based society
2120
225
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Life sciences, genomics and biotechnology for health
1.1 Advanced genomics and its applications for health
(€ 1,100 M)
1.1.1 Fundamental knowledge and basic tools for
functional genomics in all organisms
1.1.2 Application of knowledge and technologies in the
field of genomics and biotechnology for health
1.2 Combating major diseases (€ 1,155 M)
1.2.1 Application-oriented genomic approaches to
medical knowledge and technologies
1.2.2 Combating cancer
1.2.3 Confronting the major communicable diseases linked
to poverty
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Life sciences, genomics and biotechnology for health
Fundamental
genomicsand basic tools for
1.1.1 Fundamental
knowledge
functional genomics in all organisms
 Gene expression and proteomics
 Structural genomics
 Comparative genomics and population genetics
 Bioinformatics
 Multidisciplinary functional genomics
approaches to basic biological processes
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Fundamental genomics
 Gene expression and proteomics
Developing high throughput tools and approaches for
monitoring gene expression and protein profiles and for
determining protein function and protein interactions
 Structural genomics
Developing high throughput approaches for determining highresolution 3-D structures of macromolecules
 Comparative genomics and population genetics
Developing model organisms and transgenic tools;
developing epidemiology tools and standardised genotyping
protocols
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Fundamental genomics
 Bioinformatics
Developing bioinformatics tools and resources for data storage,
mining and processing; developing computational biology
approaches for in silico prediction of gene function and for the
simulation of complex regulatory networks
 Multidisciplinary functional genomics approaches to
basic biological processes
Elucidation of the mechanisms underlying fundamental cellular
processes, to identify the genes involved and to decipher their
biological functions in living organisms
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Expressions of Interest
Invitation to submit:
(Electronic submission)
20 March 2002
Deadline for EoIs:
7 June 2002
Criteria:
1.
2.
3.
4.
Quality of the rationale, objectives, general approach
Need and relevance
Excellence
For NoE Integration and structuring effect
(addressing fragmentation)
For IP
Integration (delivering specific results)
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Expressions of Interest
ANALYSIS METHODOLOGY
Peer review by panels of high level experts
• Remote assessment prior to the panel meeting
 individual scores and
‘citation lists’ of top 15 EoIs
• Discussion at the panel meeting

definition of priority topics for IP and NoE
- no pre-selection of particular EoIs or consortia
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Fundamental genomics
Expressions of Interest: Overall response (total: 523)
Basic biological
processes
Comparative genomics
and population genetics
Gene expression
and proteomics
Structural
genomics
51
32
Not relevant
(reassigned)
96
58 183
IP : NoE  approximate ratio 2:1
103
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Fundamental genomics
• The experts recommended 30 topics in total
• Each topic represents on the average 3 EoIs
• About 15 topics could be open in each of the two calls
• The selected topics will be open only for the call indicated
• Competition between topics and within topic areas
• Some topic areas which are open might end up not being
supported (depending on quality of the proposals)
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Gene expression and proteomics
• Development of advanced array technologies for proteins,
DNA and RNA
• Development and application of high throughput proteomics
technologies for the generation of a large data set of proteinprotein interactions
• Global in situ gene expression analysis in mouse models
and human tissue
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Structural genomics
• High throughput 3D-structure determination of membrane
proteins
• Supramolecular analysis by 3D-electron microscopy in situ
• Development of new hardware and software for the
implementation of innovative automated technologies at
synchrotron sites
• Comparative structural biology of viral replication
• Structure determination of large protein complexes
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Comparative genomics and
population genetics
• Non-mammalian vertebrates as models for human
development and disease mechanisms
• Development of in-vivo imaging technologies for
phenotyping and functional analysis in cells and animal
models
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Comparative genomics and
population genetics
• RNA interference screening in Arabidopsis for identification
of gene functions relevant to health
• Molecular tools for phenotyping human populations
• Coordination and standardisation of high throughput
genotyping in human populations in Europe
• Standardisation and integration of genomic and phenotypic
information on bacterial diversity linked to human health
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Bioinformatics
• Developing methods and resources in bioinformatics to
focus on human genome annotation
• Bioinformatics and genomics grid for European research
• Development of an integrated software platform to tackle
genomic sequence-structure-function relationships
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Basic biological processes
Multidisciplinary approaches of functional genomics for :
• The cell cycle
• Non-human embryonic stem cell differentiation
• Erythroid development and disorders
• Lymphangiogenesis
• Epigenetics: chromatin dynamics, non-coding RNA,
imprinting and silencing
• Inflammation processes in human disease
• Ubiquitin-proteasome and related pathways
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Recommended topics from the EoIs
Basic biological processes
Multidisciplinary approaches of functional genomics for :
• Animal models for studying human kidney disease
• Peroxisomes in health and disease
• Inner ear or retina development and disorders
• DNA damage and repair mechanisms in health and disease
• Animal models to study human disease of the immune
system or muscle
• Large epidemiological studies of X-linked syndromes
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Indicative topics for STREPs and CA
• Standardisation of gene expression DNA arrays and
proteomics approaches
• Deciphering the processes underlying the controlled
integration and expression of transgenes in model organisms
• Methods for the production of crystals for high throughput
structural determination
• Transposon mutagenesis methods in the mouse
• Co-ordination of functional genomics in the rat model
• Role of non-coding RNA in disease
• Molecular systems biology approaches for modelling gene
functions and complex regulatory networks
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Indicative topics for STREPs and CA
• Detecting low abundance mRNAs and proteins
• Identifying new multi-protein “nanomachines”
• Comparative genomics in protozoa relating to human
health
• Programmed cell death across the eukaryotic kingdom
• Compiling large data sets on splice variants in humans
• Signal transduction pathways mediated via
serine/threonine kinases
FP
LIFE SCIENCES, GENOMICS AND BIOTECHNOLOGY FOR HEALTH
Indicative topics for SSA
• Workshops on structuring research activities of fundamental
genomics in important fields not yet addressed
• Workshops on business opportunities in functional genomics
• Bilateral meetings on fundamental genomics issues between
scientists from Europe and a third country having an S&T cooperation agreement with the EU
• Meetings on integration of candidate countries' researchers in
specific activity lines to be supported under this part of the
programme
• Technology foresight meetings to identify future opportunities
within the field of functional genomics