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Development of Laser-Based Technologies and Prototype Instruments for Genome-Wide Chromatin ImmunoPrecipitation Analyses

Development of Laser-Based Technologies and Prototype Instruments for Genome-Wide Chromatin ImmunoPrecipitation Analyses

Objective

Deciphering the complexity of chromatin-encoded information is the prerequisite for understanding the regulatory circuits governing development and (patho)physiology. Transcription factors and epigenetic modulators translate chromatin-embedded information in a dynamic and cell/gene context specific manner to orchestrate homeostasis, growth and differentiation. To date, the most powerful and commonly used approach is immunoprecipitation of chemically cross-linked chromatin (XChIP) coupled with single gene or global analysis using DNA tiling arrays (ChIP-chip) or parallel single molecule sequencing (ChIP-seq). At present, serious limitations of the XChIP technology preclude factor-DNA interaction studies at dynamic ranges below minutes. Moreover, conventional XChIP cannot be used to study samples of <106 cells or cell populations within complex biological samples. Based on established proof-of-principle experiments, the multidisciplinary ATLAS consortium will develop novel types of femtosecond (fs) UV tunable lasers to induce highly efficient DNA-protein crosslinking for ChIP analyses with unprecedented precision and reproducibility, and extending the present dynamic time range by order of magnitudes. ATLAS will further validate LaserChIP (LChIP) technologies and integrate them e.g. with manipulation of irradiated (frozen) tissues slices and microfluidic cell sorting systems. Combining LChIP with proximity ligation approaches will facilitate the analyses of cell-selective (epi)genetic programs on small pre-defined cell populations down to the single cell level. Integration of innovative SMEs with physicists, oncologists, biologists, chemists and mathematicians secures efficient introduction and application of LChIP in basic and translational research. This consortium has the technical and commercial expertise as well as the capacities to successfully develop and commercialize laser-based ChIP technologies.
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Coordinator

UNIVERSITA DEGLI STUDI DELLA CAMPANIA LUIGI VANVITELLI

Address

Viale Abramo Lincoln 5
81100 Caserta

Italy

Activity type

Higher or Secondary Education Establishments

EU Contribution

€ 547 568

Administrative Contact

Lucia Altucci (Prof.)

Participants (10)

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LIGHT CONVERSION, UAB

Lithuania

EU Contribution

€ 452 500

UNIVERSITA DEGLI STUDI DI NAPOLI FEDERICO II

Italy

EU Contribution

€ 372 000

CENTRE NATIONAL DE LA RECHERCHE SCIENTIFIQUE CNRS

France

STICHTING KATHOLIEKE UNIVERSITEIT

Netherlands

EU Contribution

€ 295 431

DIAGENODE

Belgium

EU Contribution

€ 249 750

SIGOLIS AB

Sweden

EU Contribution

€ 414 550

INSTITUTUL NATIONAL DE CERCETARE-DEZVOLTARE PENTRU TEHNOLOGII IZOTOPICE SI MOLECULARE-INCDTIM CLUJ-NAPOCA

Romania

EU Contribution

€ 75 000

UNIVERSIDAD DE VIGO

Spain

EU Contribution

€ 176 400

NET BRINEL SA

Romania

EU Contribution

€ 75 000

CENTRE EUROPEEN DE RECHERCHE EN BIOLOGIE ET MEDECINE

France

EU Contribution

€ 272 400

Project information

Grant agreement ID: 221952

Status

Closed project

  • Start date

    1 April 2009

  • End date

    30 September 2012

Funded under:

FP7-HEALTH

  • Overall budget:

    € 3 841 277

  • EU contribution

    € 2 930 599

Coordinated by:

UNIVERSITA DEGLI STUDI DELLA CAMPANIA LUIGI VANVITELLI

Italy