Tiziana Bonaldi

Publications

• Pharmacological Inhibition of LSD1 Triggers Myeloid Differentiation by Targeting GSE1 Oncogenic Functions in AML
  Oncogene. 02, 2022  |   Pubmed ID: 34862459
• Native Chromatin Proteomics (N-ChroP) to Characterize Histone Post-translational Modification (PTM) Combinatorics at Distinct Genomic Regions
  Methods in Molecular Biology (Clifton, N.J.). 2021  |   Pubmed ID: 34382194
• Spatial Epi-proteomics Enabled by Histone Post-translational Modification Analysis from Low-abundance Clinical Samples
  Clinical Epigenetics. 07, 2021  |   Pubmed ID: 34315505
• Software Options for the Analysis of MS-Proteomic Data
  Methods in Molecular Biology (Clifton, N.J.). 2021  |   Pubmed ID: 34236654
• Microbiota Derived Short Chain Fatty Acids Promote Histone Crotonylation in the Colon Through Histone Deacetylases
  Nature Communications. 01, 2018  |   Pubmed ID: 29317660
• Quantitative Chemical Proteomics Identifies Novel Targets of the Anti-cancer Multi-kinase Inhibitor E-3810
  Molecular & Cellular Proteomics : MCP. Apr, 2014  |   Pubmed ID: 24696502
• Biochemical Systems Approaches for the Analysis of Histone Modification Readout
  Biochimica Et Biophysica Acta. Mar, 2014  |   Pubmed ID: 24681439
• Polycomb-dependent H3K27me1 and H3K27me2 Regulate Active Transcription and Enhancer Fidelity
  Molecular Cell. Jan, 2014  |   Pubmed ID: 24289921
• Threshold-controlled Ubiquitination of the EGFR Directs Receptor Fate
  The EMBO Journal. Jul, 2013  |   Pubmed ID: 23799367
• Mass Spectrometry-based Identification and Characterisation of Lysine and Arginine Methylation in the Human Proteome
  Molecular BioSystems. Sep, 2013  |   Pubmed ID: 23748837
• Cell Reprogramming Requires Silencing of a Core Subset of Polycomb Targets
  PLoS Genetics. 2013  |   Pubmed ID: 23468641
• Mass Spectrometry-based Proteomics for the Analysis of Chromatin Structure and Dynamics
  International Journal of Molecular Sciences. 2013  |   Pubmed ID: 23466885
• Reply to "Chaetocin is a Nonspecific Inhibitor of Histone Lysine Methyltransferases"
  Nature Chemical Biology. Mar, 2013  |   Pubmed ID: 23416388
• Tet Proteins Connect the O-linked N-acetylglucosamine Transferase Ogt to Chromatin in Embryonic Stem Cells
  Molecular Cell. Feb, 2013  |   Pubmed ID: 23352454
• The Proteomic Investigation of Chromatin Functional Domains Reveals Novel Synergisms Among Distinct Heterochromatin Components
  Molecular & Cellular Proteomics : MCP. Mar, 2013  |   Pubmed ID: 23319141
• Methylation of CenH3 Arginine 37 Regulates Kinetochore Integrity and Chromosome Segregation
  Proceedings of the National Academy of Sciences of the United States of America. Jun, 2012  |   Pubmed ID: 22615363
• Yin Yang 1 Extends the Myc-related Transcription Factors Network in Embryonic Stem Cells
  Nucleic Acids Research. Apr, 2012  |   Pubmed ID: 22210892
• Substantial Histone Reduction Modulates Genomewide Nucleosomal Occupancy and Global Transcriptional Output
  PLoS Biology. Jun, 2011  |   Pubmed ID: 21738444
• SILAC-based Proteomic Analysis to Dissect the "histone Modification Signature" of Human Breast Cancer Cells
  Amino Acids. Jul, 2011  |   Pubmed ID: 20617350
• Systems Biology "on-the-fly": SILAC-based Quantitative Proteomics and RNAi Approach in Drosophila Melanogaster
  Methods in Molecular Biology (Clifton, N.J.). 2010  |   Pubmed ID: 20824466
• Il Complesso HP1alpha-CAF1-SetDB1-contenente Fornisce H3K9me1 Per K9me3 Suv39-mediata in Pericentrica Eterocromatina
  EMBO Reports. Jul, 2009  |   Pubmed ID: 19498464
• Systems-wide Analysis of a Phosphatase Knock-down by Quantitative Proteomics and Phosphoproteomics
  Molecular & Cellular Proteomics : MCP. Aug, 2009  |   Pubmed ID: 19429919
• Combined Use of RNAi and Quantitative Proteomics to Study Gene Function in Drosophila
  Molecular Cell. Sep, 2008  |   Pubmed ID: 18775334
• Quantitative Proteomics As a New Piece of the Systems Biology Puzzle
  Journal of Proteomics. Aug, 2008  |   Pubmed ID: 18640294
• Iodoacetamide-induced Artifact Mimics Ubiquitination in Mass Spectrometry
  Nature Methods. Jun, 2008  |   Pubmed ID: 18511913
• Site-specific Acetylation of ISWI by GCN5
  BMC Molecular Biology. 2007  |   Pubmed ID: 17760996
• PTMs on H3 Variants Before Chromatin Assembly Potentiate Their Final Epigenetic State
  Molecular Cell. Oct, 2006  |   Pubmed ID: 17052464
• "Chromatomics" the Analysis of the Chromatome
  Molecular BioSystems. Jul, 2005  |   Pubmed ID: 16880972
• Identification of a Specific Inhibitor of the Histone Methyltransferase SU(VAR)3-9
  Nature Chemical Biology. Aug, 2005  |   Pubmed ID: 16408017
• Loss of Acetylation at Lys16 and Trimethylation at Lys20 of Histone H4 is a Common Hallmark of Human Cancer
  Nature Genetics. Apr, 2005  |   Pubmed ID: 15765097
• 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. Sep, 2004  |   Pubmed ID: 15379539
• A Combination of Different Mass Spectroscopic Techniques for the Analysis of Dynamic Changes of Histone Modifications
  Proteomics. May, 2004  |   Pubmed ID: 15188406
• The N-terminus of Drosophila SU(VAR)3-9 Mediates Dimerization and Regulates Its Methyltransferase Activity
  Biochemistry. Mar, 2004  |   Pubmed ID: 15035645
• The Use of Mass Spectrometry for the Analysis of Histone Modifications
  Methods in Enzymology. 2004  |   Pubmed ID: 14979021
• Monocytic Cells Hyperacetylate Chromatin Protein HMGB1 to Redirect It Towards Secretion
  The EMBO Journal. Oct, 2003  |   Pubmed ID: 14532127
• The DNA Chaperone HMGB1 Facilitates ACF/CHRAC-dependent Nucleosome Sliding
  The EMBO Journal. Dec, 2002  |   Pubmed ID: 12486007
• Clinical Application of Mass Spectrometry-Based Proteomics in Lung Cancer Early Diagnosis
  Proteomics. Clinical Applications.   |   Pubmed ID: 32418314
• Biochemical and Computational Approaches for the Large-Scale Analysis of Protein Arginine Methylation by Mass Spectrometry
  Current Protein & Peptide Science.   |   Pubmed ID: 32338214
• Targeting the Scaffolding Role of LSD1 (KDM1A) Poises Acute Myeloid Leukemia Cells for Retinoic Acid-induced Differentiation
  Science Advances.   |   Pubmed ID: 32284990
• PRMT1 Is Recruited Via DNA-PK to Chromatin Where It Sustains the Senescence-Associated Secretory Phenotype in Response to Cisplatin
  Cell Reports.   |   Pubmed ID: 31995759
• PRMT1-mediated Methylation of the Microprocessor-associated Proteins Regulates MicroRNA Biogenesis
  Nucleic Acids Research.   |   Pubmed ID: 31777917
• Enrichment of Histones from Patient Samples for Mass Spectrometry-based Analysis of Post-translational Modifications
  Methods (San Diego, Calif.).   |   Pubmed ID: 31605746
• Epigenetic Drug Target Deconvolution by Mass Spectrometry-based Technologies
  Nature Structural & Molecular Biology.   |   Pubmed ID: 31582842
• HSWATH: Unlocking SWATH's Full Potential for an Untargeted Histone Perspective
  Journal of Proteome Research.   |   Pubmed ID: 31429292
• Therapeutic Targeting of RNA Splicing Catalysis Through Inhibition of Protein Arginine Methylation
  Cancer Cell.   |   Pubmed ID: 31408619
• Profiling of Epigenetic Features in Clinical Samples Reveals Novel Widespread Changes in Cancer
  Cancers.   |   Pubmed ID: 31137727
• Proteomics Profiling of Arginine Methylation Defines PRMT5 Substrate Specificity
  Science Signaling.   |   Pubmed ID: 30940768
• HmSEEKER: Identification of HmSILAC Doublets in MaxQuant Output Data
  Proteomics.   |   Pubmed ID: 30656827
• Alternative Digestion Approaches Improve Histone Modification Mapping by Mass Spectrometry in Clinical Samples
  Proteomics. Clinical Applications.   |   Pubmed ID: 30471193
• Mass Spectrometry-Based Proteomics to Unveil the Non-coding RNA World
  Frontiers in Molecular Biosciences.   |   Pubmed ID: 30467545
• The Kinetochore Module Okp1/Ame1 is a Reader for N-terminal Modifications on the Centromeric Histone Cse4
  The EMBO Journal.   |   Pubmed ID: 30389668
• Extensive and Systematic Rewiring of Histone Post-translational Modifications in Cancer Model Systems
  Nucleic Acids Research.   |   Pubmed ID: 29618087
• Zc3h10 is a Novel Mitochondrial Regulator
  EMBO Reports.   |   Pubmed ID: 29507079
• PARP14 Controls the Nuclear Accumulation of a Subset of Type I IFN-Inducible Proteins
  Journal of Immunology (Baltimore, Md. : 1950).   |   Pubmed ID: 29500242
• A Role for CENP-A/Cse4 Phosphorylation on Serine 33 in Deposition at the Centromere
  FEMS Yeast Research.   |   Pubmed ID: 29272409
• Chromatin Proteomics Reveals Novel Combinatorial Histone Modification Signatures That Mark Distinct Subpopulations of Macrophage Enhancers
  Nucleic Acids Research.   |   Pubmed ID: 28981749
• Design of KDM4 Inhibitors with Antiproliferative Effects in Cancer Models
  ACS Medicinal Chemistry Letters.   |   Pubmed ID: 28835804
• PAT-H-MS Coupled with Laser Microdissection to Study Histone Post-translational Modifications in Selected Cell Populations from Pathology Samples
  Clinical Epigenetics.   |   Pubmed ID: 28702092
• High Constitutive Activity of a Broad Panel of Housekeeping and Tissue-specific -regulatory Elements Depends on a Subset of ETS Proteins
  Genes & Development.   |   Pubmed ID: 28275002
• SILAC-Based Quantitative Strategies for Accurate Histone Posttranslational Modification Profiling Across Multiple Biological Samples
  Methods in Molecular Biology (Clifton, N.J.).   |   Pubmed ID: 27854018
• Mass-spectrometry Analysis of Histone Post-translational Modifications in Pathology Tissue Using the PAT-H-MS Approach
  Data in Brief.   |   Pubmed ID: 27408908
• Quantitative Assessment of Chemical Artefacts Produced by Propionylation of Histones Prior to Mass Spectrometry Analysis
  Proteomics.   |   Pubmed ID: 27373704
• Spatiotemporal Plasticity of MiRNAs Functions: The MiR-17-92 Case
  Molecular & Cellular Oncology.   |   Pubmed ID: 27314099
• The EGFR-specific Antibody Cetuximab Combined with Chemotherapy Triggers Immunogenic Cell Death
  Nature Medicine.   |   Pubmed ID: 27135741
• MYC/miR-17-92 Interplay Maintains B-lymphoma Cell Homeostasis
  Cell Cycle (Georgetown, Tex.).   |   Pubmed ID: 27097369
• MS-analysis of SILAC-labeled MYC-driven B Lymphoma Cells Overexpressing MiR-17-19b
  Data in Brief.   |   Pubmed ID: 26977435
• Recent Advances in Mass Spectrometry Analysis of Histone Post-translational Modifications: Potential Clinical Impact of the PAT-H-MS Approach
  Expert Review of Proteomics.   |   Pubmed ID: 26822344
• The Contribution of Mass Spectrometry-based Proteomics to Understanding Epigenetics
  Epigenomics.   |   Pubmed ID: 26606673
• MiR-17-92 Fine-tunes MYC Expression and Function to Ensure Optimal B Cell Lymphoma Growth
  Nature Communications.   |   Pubmed ID: 26555894
• Pathology Tissue-quantitative Mass Spectrometry Analysis to Profile Histone Post-translational Modification Patterns in Patient Samples
  Molecular & Cellular Proteomics : MCP.   |   Pubmed ID: 26463340
• Extracellular Vesicle-mediated Transfer of CLIC1 Protein is a Novel Mechanism for the Regulation of Glioblastoma Growth
  Oncotarget.   |   Pubmed ID: 26429879
• ARGONAUTE2 Cooperates with SWI/SNF Complex to Determine Nucleosome Occupancy at Human Transcription Start Sites
  Nucleic Acids Research.   |   Pubmed ID: 25605800
• Improved Bottom-up Strategy to Efficiently Separate Hypermodified Histone Peptides Through Ultra-HPLC Separation on a Bench Top Orbitrap Instrument
  Proteomics.   |   Pubmed ID: 25073962
• Proteomics Meets Genetics: SILAC Labeling of Drosophila Melanogaster Larvae and Cells for in Vivo Functional Studies
  Methods in Molecular Biology (Clifton, N.J.).   |   Pubmed ID: 25059620