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Computational and functional annotation of genomic elements during development of the model vertebrate zebrafish

Objective

The recent explosion of next generation sequencing (NGS) data has caught Europe unprepared and led to a critical shortage of computational biology expertise. As NGS methods are expected to become pervasive from basic science to personalised medicine there is an urgent need for highly skilled young scientists trained in both computational biology and experimental wet lab biology. Our network addresses this important problem of the postgenomic era. We aim to provide multi-disciplinary skills for a solid foundation in computational biology and developmental genomics. Developmental genomics is central to understanding of ontogeny and many genetic and congenital anomalies, but was outside the scope of the landmark ENCODE and FANTOM projects. ENCODE highlighted the need for an in vivo vertebrate model that enables high throughput in vivo functional testing of hypotheses generated from genome scale annotation. Zebrafish is an ideal model for extending the scope of genomics to vertebrate development. We aim to comprehensively annotate functional elements, decipher genomic codes of transcription, as well as coding and non-coding gene function during development and enhance zebrafish as an attractive developmental, comparative and disease model. The participants include 7 non-academic members (2 of which are beneficiaries), major zebrafish genomics laboratories, eminent computational biologists and world class genomics technology experts active in FANTOM and ENCODE. The training program involves 15 ESRs, more than 40 intersectoral and interdisciplinary secondments totalling 19 months, 7 training courses and 2 workshops/conferences. The main outcome of this programme is a cohort of researchers with computational, experimental laboratory and transferable skills ready to further their career in academia, public health and the private sector.

Coordinator

THE UNIVERSITY OF BIRMINGHAM
Net EU contribution
€ 546 575,76
Address
Edgbaston
B15 2TT Birmingham
United Kingdom

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Region
West Midlands (England) West Midlands Birmingham
Activity type
Higher or Secondary Education Establishments
Non-EU contribution
€ 0,00

Participants (10)

IMPERIAL COLLEGE OF SCIENCE TECHNOLOGY AND MEDICINE
United Kingdom
Net EU contribution
€ 273 287,88
Address
South Kensington Campus Exhibition Road
SW7 2AZ London

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Region
London Inner London — West Westminster
Activity type
Higher or Secondary Education Establishments
Non-EU contribution
€ 0,00
MAX-PLANCK-GESELLSCHAFT ZUR FORDERUNG DER WISSENSCHAFTEN EV
Germany
Net EU contribution
€ 387 670,08
Address
Hofgartenstrasse 8
80539 Munchen

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Region
Bayern Oberbayern München, Kreisfreie Stadt
Activity type
Research Organisations
Non-EU contribution
€ 0,00
KAROLINSKA INSTITUTET
Sweden
Net EU contribution
€ 769 006,35
Address
Nobels Vag 5
17177 Stockholm

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Region
Östra Sverige Stockholm Stockholms län
Activity type
Higher or Secondary Education Establishments
Non-EU contribution
€ 0,00
KING'S COLLEGE LONDON
United Kingdom
Net EU contribution
€ 447 888,47
Address
Strand
WC2R 2LS London

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Region
London Inner London — West Westminster
Activity type
Higher or Secondary Education Establishments
Non-EU contribution
€ 0,00
UNIVERSITE DE LIEGE
Belgium
Net EU contribution
€ 501 120,00
Address
Place Du 20 Aout 7
4000 Liege

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Region
Région wallonne Prov. Liège Arr. Liège
Activity type
Higher or Secondary Education Establishments
Non-EU contribution
€ 0,00
GENOME RESEARCH LIMITED

Participation ended

United Kingdom
Net EU contribution
€ 0,00
Address
The Gibbs Building, Euston Road 215
NW1 2BE London

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Region
London Inner London — West Camden and City of London
Activity type
Research Organisations
Non-EU contribution
€ 0,00
KARLSRUHER INSTITUT FUER TECHNOLOGIE
Germany
Net EU contribution
€ 498 432,96
Address
Kaiserstrasse 12
76131 Karlsruhe

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Region
Baden-Württemberg Karlsruhe Karlsruhe, Stadtkreis
Activity type
Higher or Secondary Education Establishments
Non-EU contribution
€ 0,00
RIKEN THE INSTITUTE OF PHYSICAL ANDCHEMICAL RESEARCH

Participation ended

Japan
Net EU contribution
€ 52 181,43
Address
Hirosawa 2-1
351 0198 Wako Shi Saitama

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Activity type
Research Organisations
Non-EU contribution
€ 0,00
CONSORCI INSTITUT D'INVESTIGACIONS BIOMEDIQUES AUGUST PI I SUNYER
Spain
Net EU contribution
€ 247 872,96
Address
Calle Rossello 149 Puerta Bjs
08036 Barcelona

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Region
Este Cataluña Barcelona
Activity type
Other
Non-EU contribution
€ 0,00
BGI EUROPE INSTITUTE FOND

Participation ended

Denmark
Net EU contribution
€ 0,00
Non-EU contribution
€ 0,00

Partners (4)

Partner

Partner organisations contribute to the implementation of the action, but do not sign the Grant Agreement.

MICRODISCOVERY GMBH
Germany
Net EU contribution
€ 0,00
Address
Marienburger Strasse 1
10405 Berlin

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Region
Berlin Berlin Berlin
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Non-EU contribution
€ 0,00
Partner

Partner organisations contribute to the implementation of the action, but do not sign the Grant Agreement.

D Young & Co LLP
United Kingdom
Net EU contribution
€ 0,00
Address

London

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Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Non-EU contribution
€ 0,00
Partner

Partner organisations contribute to the implementation of the action, but do not sign the Grant Agreement.

Skillstudio Limited
United Kingdom
Net EU contribution
€ 0,00
Address

Chislehurst

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Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Non-EU contribution
€ 0,00
Partner

Partner organisations contribute to the implementation of the action, but do not sign the Grant Agreement.

Zebrafish Model Organism Database
United States
Net EU contribution
€ 0,00
Non-EU contribution
€ 0,00