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Proteomics and functional genomics for the analysis of the different level of gene expression regulation

tiziana bonaldi

[IEO]

Tiziana Bonaldi , PhD
c/o IFOM-IEO Campus
Via Adamello, 16 - 20139 Milan, Italy
T +39 02 94375123
tiziana.bonaldimailifom-ieo-campus.it

Publications

  • Bonaldi T, Straub T, Cox T, Kumar C, Becker PB, Mann M
    Combined use of RNAi and quantitative proteomics to study gene function in Drosophila.
    Mol Cell, 2008 Sep 5;31(5):762-72.
  • Bachi A., Bonaldi T.
    Quantitative proteomics as a new piece of the systems biology puzzle.
    J Proteomics, 2008 Aug 21;71(3):357-67. Epub 2008 Jul 9.
  • Lund Nielsen M, Vermeulen M, Bonaldi T, Mann M
    Chemical artifact can lead to misidentification of ubiquitination-substrates by mass-spectrometry.
    Nat. Methods., 2008.
  • Lu A, Waanders LF, Almeida R, Li G, Allen M, Cox J, Olsen JV, Bonaldi T, Mann M.
    Nanoelectrospray peptide mapping revisited: Composite survey spectra allow high dynamic range protein characterization without LCMS on an orbitrap mass spectrometer.
    Int. Journal of Mass Spectrometry, 2007 http://dx.doi.org/10.1016/j.ijms.2007.05.006
  • Ferreira R, Eberharter A, Bonaldi T, Chioda M, Imhof A, Becker PB.
    Site-specific acetylation of ISWI by GCN5.
    BMC Mol Biol., 2007
  • Loyola A*, Bonaldi T*, Roche D, Imhof A, Almouzni G.
    PTMs on H3 variants before chromatin assembly potentiate their final epigenetic state.
    Mol Cell, * 2006 equal contribution
  • Imhof A, Bonaldi T.
    "Chromatomics" the analysis of the chromatome.
    Mol Biosyst., 2005
  • Greiner D, Bonaldi T, Eskeland R, Roemer E, Imhof A.
    Identification of a specific inhibitor of the histone methyltransferase SU(VAR)3-9.
    Nat Chem Biol., 2005
  • Fraga MF, Ballestar E, Villar-Garea A, Boix-Chornet M, Espada J, Schotta G, Bonaldi T, Haydon C, Ropero S, Petrie K, Iyer NG, Pérez-Rosado A, Calvo E, Lopez JA, Cano A, Calasanz MJ, Colomer D, Piris MA, Ahn N, Imhof A, Caldas C, Jenuwein T, Esteller M.
    Loss of acetylation at Lys16 and trimethylation at Lys20 of histone H4 is a common hallmark of human cancer.
    Nat Genet., 2005
  • Knapp S, Müller S, Digilio G, Bonaldi T, Bianchi ME, Musco G.
    The long acidic tail of high mobility group box 1 (HMGB1) protein forms an extended and flexible structure that interacts with specific residues within and between the HMG boxes.
    Biochemistry, 2004
  • Bonaldi T, Imhof A, Regula JT.
    A combination of different mass spectroscopic techniques for the analysis of dynamic changes of histone modifications.
    Proteomics. 2004
  • Eskeland R, Czermin B, Boeke J, Bonaldi T, Regula JT, Imhof A.
    The N-terminus of Drosophila SU(VAR)3-9 mediates dimerization and regulates its methyltransferase activity.
    Biochemistry. 2004
  • Bonaldi T, Regula JT, Imhof A.
    The use of mass spectrometry for the analysis of histone modifications.
    Methods Enzymol. 2004
  • T.Bonaldi, F.Talamo, P. Scaffidi, D. Ferrera, A. Porto, A. Bachi, A. Rubartelli, A. Agresti, and M.E. Bianchi
    Monocytic cells hyperacetylate chromatin protein HMGB1 to redirect it towards secretion.
    EMBO Journal 2003
  • T. Bonaldi, G. Längst, R. Strohner, P.B. Becker and M.E. Bianchi
    The DNA chaperone function of HMGB1 facilitates ACF-dependent nucleosome sliding.
    EMBO Journal, 2002
  • S. Müller, P. Scaffidi, B. Degryse, T. Bonaldi, L. Ronfani, A. Agresti, M. Beltrame and M. E. Bianchi
    The double life of HMGB1 chromatin protein: architectural factor and extracellular signal.
    EMBO Journal , 2001
  • B. Degryse, T. Bonaldi, P. Scaffidi, S. Müller,, M. Resnati, F. Sanvito, G. Arrigoni and M. E. Bianchi
    The HMG Boxes of the Nuclear Protein HMG1 Induce Chemotaxis and Cytoskeleton Reorganization in Rat Smooth Muscle Cells.
    Journal of Cell Biology, 2001
  • V. Aidinis, T. Bonaldi, M. Beltrame, S. Santagata, M. E. Bianchi and E. Spanopoulou
    The RAG1 homeodomain recruits HMG1/2 to facilitate RSS binding and to enhance the intrinsic bending activity if RAG1/2.
    Molecular Cell Biology, 1999.
update: Sept 2008
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