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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.

Field of science

  • /medical and health sciences/basic medicine/physiology/homeostasis
  • /medical and health sciences/clinical medicine/oncology
  • /natural sciences/physical sciences/optics/laser physics
  • /medical and health sciences/basic medicine/physiology

Call for proposal

FP7-HEALTH-2007-B
See other projects for this call

Funding Scheme

CP-TP - Collaborative Project targeted to a special group (such as SMEs)

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)

LIGHT CONVERSION, UAB
Lithuania
EU contribution
€ 452 500
Address
Keramiku G. 2B
10223 Vilnius
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Administrative Contact
Arūnas Varanavičius (Dr.)
UNIVERSITA DEGLI STUDI DI NAPOLI FEDERICO II
Italy
EU contribution
€ 372 000
Address
Corso Umberto I, 40
80138 Napoli
Activity type
Higher or Secondary Education Establishments
Administrative Contact
Carlo Altucci (Prof.)
CENTRE NATIONAL DE LA RECHERCHE SCIENTIFIQUE CNRS

Participation ended

France
Address
Rue Michel Ange 3
75794 Paris
Activity type
Research Organisations
Administrative Contact
Denis Fix (Mr.)
STICHTING KATHOLIEKE UNIVERSITEIT
Netherlands
EU contribution
€ 295 431
Address
Geert Grooteplein Noord 9
6525 EZ Nijmegen
Activity type
Higher or Secondary Education Establishments
Administrative Contact
Henk Stunnenberg (Prof.)
DIAGENODE
Belgium
EU contribution
€ 249 750
Address
Rue Du Bois Saint Jean 3 Liege Park Science
4102 Seraing
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Administrative Contact
Leon Etienne (Mr.)
SIGOLIS AB
Sweden
EU contribution
€ 414 550
Address
Dag Hammarskjolds Vag 58A
752 37 Uppsala
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Administrative Contact
Jonas Jarvius (Dr.)
INSTITUTUL NATIONAL DE CERCETARE-DEZVOLTARE PENTRU TEHNOLOGII IZOTOPICE SI MOLECULARE-INCDTIM CLUJ-NAPOCA
Romania
EU contribution
€ 75 000
Address
Donat 65-103
400293 Cluj - Napoca
Activity type
Research Organisations
Administrative Contact
Adrian Bot (Dr.)
UNIVERSIDAD DE VIGO
Spain
EU contribution
€ 176 400
Address
Lg Campus Lagoas Marcosende
36310 Vigo Pontevedra
Activity type
Higher or Secondary Education Establishments
Administrative Contact
Angel De Lera (Prof.)
NET BRINEL SA
Romania
EU contribution
€ 75 000
Address
Bulevardul Nicolae Titulescu 4
400420 Cluj Napoca
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Administrative Contact
Mircea Hotaran (Mr.)
CENTRE EUROPEEN DE RECHERCHE EN BIOLOGIE ET MEDECINE
France
EU contribution
€ 272 400
Address
Rue Laurent Fries 1
67404 Illkirch Graffenstaden
Activity type
Research Organisations
Administrative Contact
Steve Brooks (Dr.)