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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.
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Coordinator

THE UNIVERSITY OF BIRMINGHAM

Address

Edgbaston
B15 2tt Birmingham

United Kingdom

Activity type

Higher or Secondary Education Establishments

EU Contribution

€ 546 575,76

Participants (10)

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IMPERIAL COLLEGE OF SCIENCE TECHNOLOGY AND MEDICINE

United Kingdom

EU Contribution

€ 273 287,88

MAX-PLANCK-GESELLSCHAFT ZUR FORDERUNG DER WISSENSCHAFTEN EV

Germany

EU Contribution

€ 387 670,08

KAROLINSKA INSTITUTET

Sweden

EU Contribution

€ 769 006,35

KING'S COLLEGE LONDON

United Kingdom

EU Contribution

€ 447 888,47

UNIVERSITE DE LIEGE

Belgium

EU Contribution

€ 501 120

GENOME RESEARCH LIMITED

United Kingdom

KARLSRUHER INSTITUT FUER TECHNOLOGIE

Germany

EU Contribution

€ 498 432,96

RIKEN THE INSTITUTE OF PHYSICAL AND CHEMICAL RESEARCH

Japan

EU Contribution

€ 52 181,43

CONSORCI INSTITUT D'INVESTIGACIONS BIOMEDIQUES AUGUST PI I SUNYER

Spain

EU Contribution

€ 247 872,96

BGI EUROPE INSTITUTE FOND

Denmark

Partners (4)

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MicroDiscovery GmbH

Germany

D Young & Co LLP

United Kingdom

Skillstudio Limited

United Kingdom

Zebrafish Model Organism Database

United States

Project information

Grant agreement ID: 643062

Status

Closed project

  • Start date

    1 January 2015

  • End date

    31 December 2018

Funded under:

H2020-EU.1.3.1.

  • Overall budget:

    € 3 724 035,89

  • EU contribution

    € 3 724 035,89

Coordinated by:

THE UNIVERSITY OF BIRMINGHAM

United Kingdom