References

Selected publications from IRIC proteomics platform (since 2008)

Quantitative proteomics

  • P. Kubiniok, H. Lavoie, M. Therrien, P. Thibault
    Time-resolved phosphoproteome analysis of paradoxical RAF activation reveals novel targets of ERK
    Mol. Cell. Proteomics, in press.
  • E. Kanshin, P. Kubiniok, Y. Thattikota, D. D'Amours, P. Thibault
    Phosphoproteome dynamics of Saccharomyces cerevisiae under heat shock and cold stress
    Mol Syst Biol. 2015 Jun 3;11(6):813.
  • M. Buscarlet, V. Krasteva, L. Ho, C. Simon, J. Hébert, B. Wilhelm, G.R. Crabtree, G. Sauvageau, P. Thibault, J.A. Lessard
    Essential role of BRG, the ATPase subunit of BAF chromatin remodeling complexes, in leukemia maintenance.
    Blood. 2014 Jan 29.
  • C. Bell, L. English, J. Boulais, M. Chemali, O. Caron-Lizotte, M. Desjardins, P. Thibault
    Quantitative proteomics reveals the induction of mitophagy  in TNF-a activated macrophages.
    Mol. Cell. Proteomics, 12, 2394 (2013).
  • M. Courcelles, C. Frémin,  L. Voisin, S. Lemieux, S. Meloche, P. Thibault
    Phosphoproteome dynamics reveal novel ERK1/2 MAP kinase substrates with broad spectrum of functions.
    Mol. Syst. Biol., 9, 669 (2013)
  • M. Trost, M. Sauvageau, O. Hérault, P. Deleris, C. Pomiès, J. Chagraoui, N. Mayotte, Sylvain Meloche, Guy Sauvageau, P. Thibault
    Post-Translational Regulation of Self-Renewal Capacity: Insights from Proteome and Phosphoproteome Analyses of Stem Cell Leukemia.
    eBlood. 2012 Aug 23;120(8):e17-27
  • Laguë MN, Romieu-Mourez R, Bonneil E, Boyer A, Pouletty N, Mes-Masson AM, Thibault P, Nadeau MÈ, Boerboom D
    Proteomic profiling of a mouse model for ovarian granulosa cell tumor identifies VCP as a highly sensitive serum tumor marker in several human cancers.
    PLoS One. 2012;7(8):e42470

Cell biology

  • J.A. Gross, C. Nagy, L. Lin, É. Bonneil, M. Maheu, P. Thibault, N. Mechawar, P. Jin, G. Turecki
    Global and Site-Specific Changes in 5-Methylcytosine and 5-Hydroxymethyl cytosine after Extended Post-mortem Interval
    Front in Genetics, 7, 120 (2016).
  • M. Dieude, C. Bell, J. Turgeon, D. Beillevaire, L Pomerleau, B. Yang, K. Hamelin, S. Qi, N. Pallet, C. Beland, J.F. Cailhier, M. Rousseau, C. Rondeau, D. Gingras, C. Perreault, M. Desjardins, E. Boilard, P. Thibault, M.J. Hebert
    The 20S proteasome core, active within apoptotic exosome-like vesicles, induces autoantibody production and accelerates rejection
    Science Translational Medicine, 7, 317ra200 (2015).
  • D.C. Jeffery, N. Kakusho, Z You, M. Gharib, B Wyse, E. Drury, M. Weinreich, P. Thibault, A. Verreault, H. Masai, K. Yankulov
    CDC28 phosphorylates Cac1p and regulates the association of chromatin assembly factor 1 with chromatin
    Cell Cycle, 14, 74-85 (2015).
  • N. Zaman, G. Paresa, S. Chowdhury, E. Bonneil, P. Thibault, E. Wang, M. Trifiro, M. Paliouras
    Proteomic-coupled-network analysis of T877A-androgen receptor interactomes can predict clinical prostate cancer outcomes between White (non-Hispanic) and African-American groups
    PLoS One. 2014 Nov 19;9(11):e113190.
  • G. Laflamme, T. Tremblay-Boudreault, MA Roy, P Andersen, E Bonneil, K Atchia, P. Thibault, D. D'Amours, BH Kwok
    Structural Maintenance of Chromosome (SMC) Proteins Link Microtubule Stability to Genome
    Integrity, J. Biol. Chem, 289, 27418-31 (2014)
  • ME. Bordeleau, R. Aucagne, J. Chagraoui, S. Girard, N. Mayotte, E. Bonneil , P. Thibault, C. Pabst, A. Bergeron, F. Barabé, J. Hébert, M. Sauvageau, C. Boutonnet, S. Meloche, G. Sauvageau
    UBAP2L is a novel BMI1-interacting protein essential for hematopoietic stem cell activity
    Blood., 124, 2362-9 (2014)
  • N. Desgolshaie, X Tang, E.D. Kanshin, E.C. Williams, A.D. Rudner, P. Thibault, M. Tyers, A. Verreault
    Regulation of the histone deacetylase Hst3 by cyclin-dependent kinases and the ubiquitin ligase SCFCdc4
    J. Biol. Chem., 289, 43-49 (2014).
  • P. Wang, J. A. Galan, K. Normandin, E. Bonneil, G. R. Hickson, P. P. Roux, P. Thibault, V. Archambault
    Cell Cycle Regulation of Greatwall Kinase Nuclear Localization Facilitates Mitotic Progression
    J. Cell Biol., 202, 277 (2013).
  • K. Beckett, S. Monier, L. Palmer, C. Alexandre, H. Green, E. Bonneil, G. Raposo, P. Thibault, R. Le Borgne, J.P.Vincent
    Drosophila S2 cells secrete wingless on exosome-like vesicles but the wingless gradient forms independently of exosomes
    Traffic, 14, 82-96 (2013).
  • P. Déléris, M. Trost, I. Topisirovic, P.-L. Tanguay, K. Borden, P. Thibault, S. Meloche
    Activation loop phosphorylation of the atypical MAP kinases ERK3/ERK4 by group I PAKs defines a novel PAK-ERK3/4-MK5 signaling pathway
    J. Biol. Chem., 286, 6470-6478 (2011).
  • A. Carrière, Y. Romeo, H.A. Acosta-Jaquez, J. Moreau, E. Bonneil, P. Thibault, D.C. Fingar, P.P. Roux
    ERK1/2 phosphorylate Raptor to promote Ras-dependent activation of mTOR complex 1 (mTORC1)
    J. Biol. Chem., 286, 567-577 (2011).
  • J. FitzGerald, S. Moureau, P. Drogaris, E. O'Connell, N. Abshiru, A. Verreault, P. Thibault, M. Grenon, N. Lowndes
    Regulation of the DNA Damage Response and Gene Expression by the Dot1L Histone Methyltransferase and the 53Bp1 Tumour Suppressor
    PLOS One, 6, e14714 (2011).
  • D. Ashton-Beaucage, C. M. Udell, H. Lavoie, C. Baril, M. Lefrançois, P. Chagnon, P. Gendron, O. Caron-Lizotte, É. Bonneil, P. Thibault, M. Therrien
    The Exon Junction Complex Controls the Splicing of mapk pre-mRNA and Other Long Intron-Containing Transcripts in Drosophila
    Cell, 143, 251–262, (2010).
  • S. Durand, M. Feldhammer, E. Bonneil, P. Thibault, A.V. Pshezhetsky
    Analysis of the Biogenesis of Heparan Sulfate Acetyl-CoA: a-Glucosaminide N-Acetyltransferase Provides Insights into the Mechanism Underlying Its Complete Deficiency in Mucopolysaccharidosis IIIC
    J. Biol. Chem, 285,31233-31242 (2010).
  • I. Topisirovic, N. Siddiqui, VL Lapointe, M. Trost, P Thibault, C Bangeranye, S Piñol-Roma, KLC Borden
    Molecular dissection of the eukaryotic initiation factor 4E (eIF4E) export-competent RNP
    EMBO J., 28, 1087-1098 (2009).
  • A. Carrière, M. Cargnello, L.-A. Julien, H. Gao, E. Bonneil, P. Thibault, P. P. Roux
    Oncogenic MAPK Signaling Regulates mTORC1 Assembly by Promoting Raptor Phosphorylation via ERK and RSK
    Current Biol, 18, 1269-1277 (2008).
  • Y. Tang, M. A Holbert, H. Wurtele, K. Meeth, W. Rocha, M. Gharib,E. Jiang, P. Thibault, A.Verreault, P. A Cole, R. Marmorstein
    Fungal Rtt109histone acetyltransferase is an unexpected structural homolog of metazoanp300/CBP
    Nature Struct. Mol. Biol., 15, 738-745 (2008).
  • JF. Clément, A Bibeau-Poirier, SP Gravel, N Grandvaux, E Bonneil, P Thibault, S Meloche, MJ Servant
    Phosphorylation of IRF-3 on Ser 339 generates a hyperactive form of IRF-3 through regulation of dimerization and CBP association
    J. Virol., 82, 3984-3996 (2008).

Protein modifications

  • F. Lamoliatte, F.M. McManus, G. Maarifi, M.K. Chelbi-Alix, P. Thibault
    Uncovering the SUMOylation and Ubiquitylation Crosstalk in Human Cells Using Sequential Peptide Immunopurification
    Nature Commun., 8:14109 (2017).
  • V. Bachmann, J.E. Mayrhofer, R. Llouz, P. Tschaikner, P. Raffeiner, R. Rock, M. Courcelles, Apelt, T-W. Lu, P. Thibault, P. Aanstad, U. Stelzl, S.S. Taylor, E. Stefan
    GPR161 anchoring of PKA consolidates GPCR and cAMP signaling
    P.N.A.S, 113, 7786 (2016).
  • N. Abshiru, R. E. Rajan, A. Verreault, P. Thibault
    Unraveling site-specific and combinatorial histone modifications using high-resolution mass spectrometry in histone deacetylase mutants of fission yeast
    J. Prot. Res, 15, 2132 (2016).
  • V. Kota, G. Sommer, C. Durette, P. Thibault, E. A. van Niekerk, J. L. Twiss, T. Heise
    SUMO-modification of the La protein facilitates binding to mRNA in vitro and in cell
    PLoS One, 11(5), e0156365 (2016).
  • F. McManus, C. Desroches Altamirano, P. Thibault
    In vitro assay to determine SUMOylation sites on protein substrate
    Nature protocols, 11, 387, 2016.
  • N. Abshiru, O. Caron-Lizotte, R.E. Rajan, A. Jamai, C. Pomies, A. Verreault, P. Thibault
    Discovery of protein acetylation patterns by deconvolution of peptide isomer mass spectra
    Nature Commun., 6, 8648 (2015).
  • J. Gagnon, S. Daou, N. Zamorano, NV. Iannantuono, I. Hammond-Martel, N. Mashtalir, E. Bonneil, H. Wurtele, P. Thibault, B. Affar el
    Undetectable histone O-GlcNAcylation in mammalian cells.
    Epigenetics. 2015 Aug 3;10(8):677-91.
  • E. Kanshin, M. Tyers, P. Thibault
    Sample Collection Method Bias Effects in Quantitative Phosphoproteomics
    J Proteome Res. 2015 Jul 2;14(7):2998-3004.
  • A. Simoneau, N. Delgoshaie, I. Celic, J. Dai, N. Abshiru, S. Costantino, P. Thibault, JD. Boeke, A. Verreault, H. Wurtele
    Interplay between histone H3 lysine 56 deacetylation and chromatin modifiers in response to DNA damage
    Genetics. 2015 May;200(1):185-205.
  • E. Kanshin, LP. Bergeron-Sandoval, SS. Isik, P. Thibault, SW. Michnick
    A cell-signaling network temporally resolves specific versus promiscuous phosphorylation
    Cell Rep. 2015 Feb 24;10(7):1202-14.
  • F. Lamoliatte, D. Caron, C. Durette, L. Mahrouche, M. A. Maroui, O. Caron-Lizotte, E. Bonneil, M.K. Chelbi-Alix, P. Thibault
    Large-scale analysis of lysine SUMOylation by SUMO remnant immunoaffinity profiling
    Nature Commun. 5, 5409 (2014).
  • J.A. Galan, K.M. Geraghty, G. Lavoie, E. Kanshin, J. Tcherkezian, V. Calabrese, G.R. Jeschke, B.E. Turk, B.A. Balli, J. Blenis, P. Thibault, P.P. Roux
    Phosphoproteomic analysis identifies the tumor suppressor PDCD4 as a RSK substrate negatively regulated by 14-3-3
    PNAS, 111, E2918-27 (2014).
  • P.P. Roux, P Thibault
    The coming of age of phosphoproteomics; from large data sets to inference of protein functions.
    Mol. Cell Proteomics, 12, 3453 (2013).
  • I.N. Soares, FA Caetano, J Pinder, B Roz Rodrigues, FH Beraldo, VG Ostapchenko, C Durette, G Schenatto Pereira, MH Lopes, N Queiroz-Hazarbassanov, IW Cunha, PI Sanematsu, S Suzuki, LF Bleggi-Torres, C Schild-Poulter, P Thibault, G Dellaire, VR Martins, VF Prado, MA.Prado
    Regulation of stress-inducible phosphoprotein 1 nuclear retention by PIAS1
    Mol. Cell Proteomics, 12, 3253 (2013).
  • F. Lamoliatte, E. Bonneil, C. Durette, O. Caron-Lizotte, D. Wildemann, J. Zerweck, H. Wenshuk, P. Thibault
    Targeted identification of SUMOylation sites in human proteins using affinity enrichment and paralog-specific reporter ions
    Mol. Cell. Proteomics, 12, 2536 (2013).
  • E. Kanshin, S.W. Michnick, P. Thibault
    Displacement of N/Q-rich Peptides on TiO2 Beads Enhances the depth and coverage of yeast phosphoproteome analyses
    J. Prot. Res., 12, 2905 (2013).
  • R Fonseca-Maldonado, DS Vieira, JS Alponti, E Bonneil, P Thibault, RJ Ward
    Engineering the pattern of protein glycosylation modulates the themostability of a GH11 xylanase
    J. Biol. Chem, 288, 25522-25534 (2013).
  • N. Abshiru, K. Ippersiel, Y. Tang, H. Yuan, R. Marmorstein, A. Verreault, P.Thibault
    Chaperone-mediated acetylation of histone by Rtt109 identified by quantitative proteomics
    J. Proteomics, 81, 80-90 (2013).
  • K. Hilmi, N. Hussein, R. Mendoza-Sanchez, M. El-Ezzy, H. Ismail, C. Durette, M. Bail, M.J. Rozendaal, M. Bouvier, P. Thibault, J. L. Gleason and S. Mader
    Role of SUMOylation in full antiestrogenicity
    Mol. Cell. Biol., 19, 3823-37 (2012).
  • M. Courcelles, G. Bridon, S. Lemieux, P. Thibault
    Occurrence and detection of phosphopeptide isomers in large-scale phosphoproteomics experiments
    J. Proteome Res., 11, 3753-3765 (2012).
  • E. Kanshin, S. Michnick, P. Thibault
    Sample preparation and analytical strategies for large-scale phosphoproteomics experiments
    Sem. Cell Dev. Biol., 23, 843-53 (2013).
  • Yuan H, Rossetto D, Mellert H, Dang W, Srinivasan M, Johnson J, Hodawadekar S, Ding EC, Speicher K, Abshiru N, Perry R, Wu J, Yang C, Zheng YG, Speicher DW, Thibault P, Verreault A, Johnson FB, Berger SL, Sternglanz R, McMahon SB, Côté J, Marmorstein R.
    MYST protein acetyltransferase activity requires active site lysine autoacetylation
    EMBO J. 31, 58-70 (2011).
  • P. Drogaris, V. Villeneuve, C. Pomiès, E.-H. Lee, V. Bourdeau, É. Bonneil, G. Ferbeyre, A. Verreault, P. Thibault
    Histone Deacetylase Inhibitors Globally Enhance H3/H4 Tail Acetylation Without Affecting H3 Lysine 56 Acetylation
    Nature Scientific report, 2:220 (2012). Cited in Faculty of 1000 (http://f1000.com/715697811).
  • L. Freschi, M. Courcelles, P. Thibault P, S.W. Michnick, C.R. Landry
    Phosphorylation network rewiring by gene duplication
    Mol Syst Biol. 7, 504 (2011).
  • M. Courcelles, S. Lemieux, L. Voisin, S. Meloche, P. Thibault
    ProteoConnections: a platform facilitating the analysis and comparison of proteomics and phosphoproteomics datasets
    Proteomics, 11, 2654-2671 (2011).
  • B. Guillemette, P. Drogaris, H.-H. S. Lin, H. Armstrong, K. Hiragami-Hamada, A. Imhof, E. Bonneil, P. Thibault, A. Verreault, R. Festenstein
    Histone H3 lysine 4 acetylation promotes gene expression and is confined to promoters by H3 lysine 4 tri-methylation
    PLoS Biol., 7, e1001354 (2011).
  • Y. Tang,  M. A. Holbert, N. Delgoshaie, H. Wurtele, B. Guillemette, K. Meeth, H. Yuan, P. Drogaris, E.-H. Lee, C. Durette, P. Thibault, A. Verreault, P.A. Cole, R. Marmorstein
    Structure of the Rtt109-AcCoA/Vps75 Complex and Implications for Chaperone-Mediated Histone Acetylation
    Structure, 19, 221-231 (2011).
  • F. Galisson, L. Mahrouche, M. Courcelles, E. Bonneil, S. Meloche, M. K. Chelbi-Alix, P. Thibault
    A novel proteomics approach to identify SUMOylated proteins and their modification sites in human cells
    Mol Cell. Proteomics, 10, M110.004796 (2011).
  • H. Wurtele, S. Tsao, G. Lépine, A. Mullick, P. Drogaris, E.-H. Lee, P. Thibault, A. Verreault, M. Raymond
    Modulation of Histone H3 Lysine 56 Acetylation as a Novel Antifungal Therapeutic Strategy
    Nature Medicine, 16(7):774-80 (2010).
  • M. Trost, G. Bridon, M. Desjardins, P. Thibault
    Subcellular phosphoproteomics
    Mass Spectrometry reviews, 29, 962-990 (2010).
  • K. Thivierge, A. Prado, B.T. Driscoll, E. Bonneil, P. Thibault, J.C. Bede
    Caterpillar- and salivary-specific modifications of plant proteins
    J Proteome Res. 9, 5887-5895 (2010).
  • M. Gharib, M. Marcantonio, S.G. Lehmann, M. Courcelles, S. Meloche, A. Verrreault, P. Thibault
    Artifactual O-sulfation of silver-stained proteins: Implications for the assignment of phosphorylation and sulfation sites
    Mol. Cell. Proteomics, 8, 506-518 (2009).

Immunology and MHC I peptides

  • H. Pearson, T .Daouda, D.P. Granados, C. Durette, E. Bonneil, M. Courcelles, A. Rodenbrock, J.P. Laverdure, C. Côté, S. Mader, S. Lemieux, P. Thibault, C.Perreault
    MHC class I-associated peptides derive from selective regions of the human genome
    J. Clin. Invest., 126, 4690 (2016)
  • N.A. Nagarajan, D.A. deVerteuil, D. Sriranganadane, W. Yahyaoui, P. Thibault, C. Perreault, N. Shastri
    ERAAP Shapes the Peptidome Associated with Classical and Nonclassical MHC Class I Molecules
    J. Immunol., 197, 1035 (2016).
  • D. Granados, A. Rodenbrock#, J.-P. Laverdure, C. Côté, O. Caron-Lizotte, C. Carli, H. Pearson, V. Janelle, C. Durette, É. Bonneil, D.-C. Roy, J.-S. Delisle, S. Lemieux, P. Thibault, C. Perreault
    Proteogenomic-based discovery of minor histocompatibility antigens with suitable features for immunotherapy of hematologic cancers
    Leukemia, 30, 1344-1354 (2016)
  • C.M. Laumont, T. Douada, J.-P. Laverdure, E. Bonneil, O. Caron-Lizotte, M.P. Hardy, D.P. Granados, C. Durette, S. Lemieux, P. Thibault, C. Perreault
    Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames
    Nature Commun., 7;10238 (2016)
  • D. Paola Granados, C. Laumont, P. Thibault, C. Perreault
    The nature of self for T cells - A systems-level perspective
    Curr Opin Immunol. 2015 Jun;34:1-8.
  • D. Paola Granados, D. Sriranganadane, T. Daouda, A. Zieger, C. M. Laumont, O. Caron-Lizotte, G. Boucher, M.-P. Hardy, P. Gendron, C. Côté, S. Lemieux, P. Thibault, C. Perreault
    Impact of Genomic Polymorphisms on the Repertoire of Human MHC Class I-Associated Peptides
    Nature Commun. 2014 Apr 9;5:3600. doi: 10.1038
  • M.A. Germain, L. Chatel-Chaix, B. Gagné, E. Bonneil, P. Thibault, F. Pradezynski, B. de Chassey, L. Meyniel-Schicklin, V. Lotteau, M. Baril, D. Lamarre
    Elucidating novel hepatitis C virus-host interactions using combined mass spectrometry and functional genomics approaches
    Mol. Cell. Proteomics, 13, 184-203 (2014).
  • K. Vincent, M._P. Hardy, A. Trofimov, C.M. Laumont, D. Sriranganadane, S. Hadj-Mimoune, I. Salem Fourati, H. Soudeyns, P. Thibault, C. Perreault
    Rejection of mouse leukemic cells requires antigen-specific T cells with high functional avidity
    Biology of Blood and Marrow Transplantation, 20, 37-45 (2014).
  • L. Chatel-Chaix, M.A. Germain, A. Motorina, E. Bonneil, P. Thibault, M. Baril, D. Lamarre
    A host YB-1 ribonucleoprotein complex is hijacked by hepatitis C virus for the control of NS3-dependent particle production
    J. virol., 87, 11704-20 (2013).
  • C. Bell, M. Desjardins, P. Thibault, K. Radtke
    Proteomics Analysis of Herpes Simplex Virus Type 1-Infected Cells Reveals Dynamic Changes of Viral Protein Expression, Ubiquitylation, and Phosphorylation
    J. Prot, Res.,  12, 1820-1829 (2013).
  • N. Pallet, I. Sirois, C. Bell, L.-A. Hanafi, K. Hamelin, M. Dieudé, C. Rondeau, P. Thibault, M. Desjardins, M.J. Hébert
    A comprehensive characterization of autophagic membrane vesicles released by apoptotic human endothelial cells
    Proteomics, 13, 1108-1120 (2013).
  • Goyette G, Boulais J, Carruthers NJ, Landry CR, Jutras I, Duclos S, Dermine JF, Michnick SW, Laboissière S, Lajoie G, Barreiro L, Thibault P, Desjardins M
    Proteomic characterization of phagosomal membrane microdomains during phagolysosome biogenesis and evolution
    Mol Cell Proteomics, 11, 1365-77 (2012).
  • D.Granados, W. Yahyaoui, C. M. Laumont, T. Daouda, T. Muratore-Schroeder, C. Côté, J.-P. Laverdure, S. Lemieux, P. Thibault, Claude Perreault
    MHC I-associated peptides preferentially derive from transcripts bearing miRNA response elements
    eBlood 119: e181-e191 (2012).
  • D. deVerteuil. D. Granados, P. Thibault, C. Perreault
    Origin and plasticity of MHC-I-associated self peptides
    Autoimmunity reviews, 11, 627-35 (2012).
  • F.X. Campbell-Valois, M. Trost, M. Chemali, B.D. Dill, A. Laplante, S. Duclos, S. Sadeghi , C. Rondeau, I.C. Morrow, C. Bell, K. Hatsuzawa, P. Thibault, M. Desjardins
    Quantitative proteomics reveals that only a subset of the endoplasmic reticulum contributes to the phagosome
    Mol Cell Proteomics, , M111.016378v1 (2012).
  • E. Caron, K. Vincent, M.-H. Fortier, J.-P. Laverdure, A. Bramoullé, M.-P. Hardy, G. Voisin, P.P. Roux, S. Lemieux, P. Thibault, C. Perreault
    The MHC I immunopeptidome conveys to the cell surface an integrative view of cellular regulation
    Mol. Syst. Biol., 7, 533 (2011).
  • D. de Verteuil, T. L. Muratore-Schroeder, D. P. Granados, M.-H. Fortier, M.-P. Hardy, A. Bramoullé, É. Caron, K. Vincent, S. Mader, S. Lemieux, P. Thibault, C. Perreault
    Immunoproteasomes Imprint on the Transcriptome and Have a Broad Impact on Peptides Presented by Major Histocompatibility Complex I molecules
    Mol. Cell. Proteomics, 9, 2057-2070 (2010).
  • J. Boulais, M. Trost, C. Landry, R. Dieckmann, E. Levy, T. Soldati, S. Michnick, P. Thibault, M. Desjardins
    Molecular characterization of the evolution of phagosomes
    Mol. Syst. Biol., 6, 423 (2010).
  • I. Jutras, M. Houde, N. Currier, J. Boulais, S. Duclos, S. LaBoissière, E. Bonneil, P. Kearney, P. Thibault, E. Paramithiotis, P. Hugo, M. Desjardins
    Modulation of the phagosome proteome by interferon-g
    Mol Cell Proteomics, 7, 697-715 (2008).
  • M.-H. Fortier, E. Caron, M.-P. Hardy, G. Voisin, S. Lemieux, C. Perreault, P. Thibault
    The MHC I immunopeptidome is moulded by the transcriptome
    J. Exp. Med., 205, 595-610 (2008).

Technology development

  • S. Pfammatter, E. Bonneil, P. Thibault
    Improvement of quantitative measurements in multiplex proteomics using high-field asymmetric waveform ion mobility spectrometry
    J. Proteome Res., 15, 4653 (2016).
  • E. Bonneil, S. Pfammatter, P. Thibault
    Enhancement of mass spectrometry performance for proteomic analyses using High-Field asymmetric waveform ion mobility spectrometry (FAIMS)
    Invited review in J. Mass Spectrom. 50, 1181-1195 (2015).
  • G. Bridon, E. Bonneil, T. Muratore-Schroeder, O. Caron-Lizotte, P. Thibault
    Improvement of phosphoproteome analyses using FAIMS and decision tree fragmentation; Application to the insulin signalling pathway in Drosophila melanogaster S2 cells
    J. Proteome Res., 11, 927 (2012).
  • J. Saba, E. Bonneil, C. Pomies, K. Eng, P.Thibault
    Enhanced Sensitivity in Proteomics Experiments Using FAIMS Coupled to a Hybrid Linear Ion Trap/Orbitrap Mass Spectrometer
    J. Proteome Res., 8, 3355–3366 (2009).
  • P. Drogaris, Y. Le Blanc, J. Fitzgerald, N. Lowndes, A. Verreault, P. Thibault
    Enhanced protein detection using a novel trapping mode on a hybrid quadrupole-linear ion trap (Q-Trap)
    Anal. Chem., 81, 6300-6309 (2009).
  • C. Pardin, I. Roy, R. Chica, E. Bonneil, P. Thibault, W. Lubell, J. Pelletier, J, Keillor
    Photolabeling of Tissue Transglutaminase Reveals Binding Mode of Potent Cinnamoyl Inhibitors
    Biochemistry, 48, 3346-3353 (2009).
  • M. Boutin, C. Berthelette, F. G. Gervais, M.-B. Scholand, J. Hoidal, M. F. Leppert, K. P. Bateman, P. Thibault
    High Sensitivity NanoLC-MS/MS Analysis of Urinary Desmosine and Isodesmosine
    Anal. Chem, 81, 1881-1887 (2009).
  • Bendall S.C., Hughes C., Campbell J.L., Stewart MH, Pittock P., Liu S., Bonneil E., Thibault P., Bhatia M., Lajoie G.A.
    An enhanced mass spectrometry approach reveals human embryonic stem cell growth factors in culture
    Mol. Cell. Proteomics, 8, 421-432 (2009).
  • M. Boutin, I. Ahmad, M. Jauhiainen, N. Lachapelle, C. Rondeau, J. Roy, P. Thibault
    NanoLC-MS/MS Analyses of Urinary Desmosine, Hydroxylysylpyridinoline and Lysylpyridinoline as Biomarkers for Chronic Graft-Versus-Host Disease
    Anal. Chem., 81, 9454–9461 (2009).
  • P. Drogaris, H. Wurtele, H. Masumoto, A. Verreault, P. Thibault
    Comprehensive profiling of histone modifications using a label-free approach and its applications in determining structure-function relationships
    Anal. Chem, 80, 6698-6707 (2008).
  • M. Marcantonio, M. Trost, M. Courcelles, M. Desjardins, P. Thibault
    Combined enzymatic and data mining approaches for comprehensive phosphoproteome analyses; application to cell signaling events of interferon-γ stimulated macrophages
    Mol Cell Proteomics, 7, 645-660 (2008).