IGBMC : Institut de la Génétique et de la Biologie Moléculaire et Cellulaire

• Researchers

  Hinrich GRONEMEYER

  Marco Antonio MENDOZA PARRA

  Shankara Narayanan PATTABHIRAMAN

• Post-Doctoral Fellowships

  Valeria PAVET-PORTAL

  Maximiliano PORTAL

• Phd Students

  Pierre BORIES

  Valeriya MALYSHEVA

  Mohamed Ashick MOHAMED SALEEM

  Yelyzaveta SHLYAKHTINA

• Engineers & Technicians

  Benjamin BILLORE

  Matthias BLUM

  Pierre-Etienne CHOLLEY

  Cathie ERB

  Michèle LIEB

• Administration

  Irène YUJNOVSKY

Functional genomics & cancer

Systems biology of cell fate decisions in normal and tumor cells

Our interest is to understand the mechanisms and dynamics of signal transduction, epigenetic (de)regulation and chromatin structure, which coordinate global gene expression programs in normal and cancer cells. Based on our expertise on nuclear receptors action we develop technologies and global systems biology approaches to identify comprehensive RNA profiles, transcription factor binding sites, epigenomes and chromatin interactomes from ultra-small sample sizes, and use integrative bioinformatics to identify functional gene “hubs” and decision points that dynamically coordinate gene programming. Our studies involve a plethora of genome-wide technologies and the corresponding development of bioinformatics tools.

A particular interest of our team is the integrative analysis of aberrations affecting signaling, epigenome, chromatin architecture and transcriptome upon tumorigenic transformation. In this context we identify targets and mechanisms, which are relevant for the development of novel therapeutic paradigms, and study the mechanisms and therapeutic potential of signaling drugs and epigenetic modulators.

Another emphasis of our work is to decipher the mechanisms underlying the cancer-selectivity of apoptogenic TRAIL signaling. Studies on the role of the senescence-mediated secretome on TRAIL action and the epigenetic alterations during cellular senescence address the link between cancer and aging.

Team website

• Current projects

  - A multivalent peptide library approach to identify functional TRAIL mimetics, ApoMULTI-LIB. Project financed by the ANR
  - Molecular analysis of tumor-cell specific apoptosis. Project financed by the Ligue Nationale contre le cancer
  - HEALTH-F4-2007-200767 (APO-SYS) Apoptosis systems biology applied to cancer and AIDS. An integrated approach of experimental biology. Project financed by the European Commission
  - HEALTH-2007- 221952 (ATLAS) Development of Laser-Based Technologies and Prototype Instruments for Genome-Wide Chromatin ImmunoPrecipitation Analyses. Project financed by the European Commission
  - Decryption of the role(s) of methylated CBP/p300 species in signal transduction:  Analysis of methyl-HAT « codes » in differentiation and aberrant HAT methylation in cancer. Project financed by the INCa
  - Identification of modulators and gene expression signatures of TRAIL sensitivity. Project funded by ARC
  - Epigenetic regulation of tumour-cell specific apoptosis. Project financed by the INCa

• Collaborations

  - Dr. Angel de Lera, Professor of Organic Chemistry, Universidade de Vigo, Vigo, SPAIN
  - Dr. Laurence Vandel, Centre de Biologie du Developpement, UMR5547 du CNRS/Universite Paul Sabatier, Toulouse, FRANCE
  - Dr. William Bourguet, Centre de Biochimie Structurale, CNRS UMR5048 / INSERM U1054, Montpellier, France
  - Dr. Raoul Herbrecht, Hôpitaux Universitaires de Strasbourg, Strasbourg, France
  - Dr. Gilles Guichard, Institut Européen de Chimie et Biologie (IECB), Université de Bordeaux I - CNRS UMR 5248, Pessac, France
  - Dr. Sylvie Fournel, PhD, Institut de Biologie Moléculaire et Cellulaire, CNRS UPR 9021, Strasbourg, FRANCE
  - Olivier Micheau, INSERM  U866-Lipides Nutrition Cancer, Facultés de Médecine et de Pharmacie, Dijon, FRANCE
  
  ATLAS: http://www.atlas-eu.com/
  APO-SYS : http://www.apo-sys.eu/

• Prizes/Awards

  • Hinrich GRONEMEYER - Scientific Excellence Award - Inserm - 2010
  • Hinrich GRONEMEYER - European Medal - The Endocrine Society - 1996
  • Hinrich GRONEMEYER - Member of the European Molecular Biology Organization (EMBO) - European Molecular Biology Organization (EMBO) - 1995
  • Hinrich GRONEMEYER - Scientific Prize - Société Française d'Endocrinologie (SFE) - 1991

• News

  • June 6, 2011 - Smaller and smaller samples
  • June 1, 2011 - The oestradiol secret code

• Publications

  • Characterising ChIP-seq binding patterns by model-based peak shape deconvolution.

    Mendoza-Parra MA, Nowicka M, Van Gool W, Gronemeyer H.

    BMC Genomics Nov. 26, 2013 ; 14:834 .

  • Functions, Therapeutic Applications, and Synthesis of Retinoids and Carotenoids.

    Alvarez R, Vaz B, Gronemeyer H, de Lera AR.

    Chem Rev Nov. 22, 2013 .

  • A quality control system for profiles obtained by ChIP sequencing.

    Mendoza-Parra MA, Van Gool W, Mohamed Saleem MA, Ceschin DG, Gronemeyer H.

    Nucleic Acids Res Nov. 1, 2013 ; 41:e196 .

  • Genome-wide studies of nuclear receptors in cell fate decisions.

    Mendoza-Parra MA, Gronemeyer H.

    Semin Cell Dev Biol Aug. 2, 2013 ; 24:706-715 .

  • Sticky siRNAs targeting survivin and cyclin B1 exert an antitumoral effect on melanoma subcutaneous xenografts and lung metastases.

    Kedinger V, Meulle A, Zounib O, Bonnet ME, Gossart JB, Benoit E, Messmer M, Shankaranarayanan P, Behr JP, Erbacher P, Bolcato-Bellemin AL.

    BMC Cancer July 9, 2013 ; 13:338 .

  • Enantioselective apoptosis induction in histiocytic lymphoma cells and acute promyelocytic leukemia cells.

    Ivanova D, Gronemeyer H, Steinberg P, Nau H.

    Arch Toxicol Feb 2013 ; 87:303-10 .

  • Aronia melanocarpa juice induces a redox-sensitive p73-related caspase 3-dependent apoptosis in human leukemia cells.

    Sharif T, Alhosin M, Auger C, Minker C, Kim JH, Etienne-Selloum N, Bories P, Gronemeyer H, Lobstein A, Bronner C, Fuhrmann G, Schini-Kerth VB.

    PLoS One 2012 ; 7:e32526 .

  • Single-tube linear DNA amplification for genome-wide studies using a few thousand cells.

    Shankaranarayanan P, Mendoza-Parra MA, van Gool W, Trindade LM, Gronemeyer H.

    Nat Protoc Jan. 26, 2012 ; 7:328-38 .

  • Retinoid receptors and therapeutic applications of RAR/RXR modulators.

    Maire Al, Alvarez S, Shankaranarayanan P, Lera AR, Bourguet W, Gronemeyer H.

    Curr Top Med Chem Mar 2012 ; 12:505-27 .

  • POLYPHEMUS: R package for comparative analysis of RNA polymerase II ChIP-seq profiles by non-linear normalization.

    Mendoza-Parra MA, Sankar M, Walia M, Gronemeyer H.

    Nucleic Acids Res Feb 2012 ; 40:e30 .

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