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Label-free Quantification and Shotgun Analysis of Complex Proteomes by One-dimensional SDS-PAGE/NanoLC-MS

 Violette Gautier , Emmanuelle Mouton-Barbosa , David Bouyssié , Nicolas Delcourt , Mathilde Beau , et al.
Molecular and Cellular Proteomics, 2012, 11 (8), pp.527 - 539. ⟨10.1074/mcp.m111.015230⟩
Article dans une revue hal-03080223v1
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Potential Plasticity of the Mannoprotein Repertoire Associated to Mycobacterium tuberculosis Virulence Unveiled by Mass Spectrometry-Based Glycoproteomics

 Laure Tonini , Bashir Sadet , Alexandre Stella , David Bouyssié , Jérôme Nigou , et al.
Molecules, 2020, 25 (10), pp.2348. ⟨10.3390/molecules25102348⟩
Article dans une revue hal-03032960v1
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Proline: an efficient and user-friendly software suite for large-scale proteomics

 David Bouyssié , Anne-Marie Hesse , Emmanuelle Mouton-Barbosa , Magali Rompais , Charlotte Macron , et al.
Bioinformatics, 2020, 36 (10), pp.3148-3155. ⟨10.1093/bioinformatics/btaa118⟩
Article dans une revue hal-02551168v1

Proteomic analysis of chloroplast-to-chromoplast transition in tomato reveals metabolic shifts coupled with disrupted thylakoid biogenesis machinery and elevated energy-production components

 Cristina Barsan , Mohammed Zouine , Elie Maza , Wanping Bian , Isabel Egea Sanchez , et al.
Plant Physiology, 2012, 160 (2), pp.708-725. ⟨10.1104/pp.112.203679⟩
Article dans une revue hal-02646171v1
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Comprehensive human urine standards for comparability and standardization in clinical proteome analysis

 Harald Mischak , Walter Kolch , Michalis Aivaliotis , David Bouyssié , Magali Court , et al.
PROTEOMICS - Clinical Applications, 2011, 4 (4), pp.464 - 478. ⟨10.1002/prca.200900189⟩
Article dans une revue hal-03080260v1

Quantitative Proteomics Reveals a Dynamic Association of Proteins to Detergent-resistant Membranes upon Elicitor Signaling in Tobacco

 Thomas Stanislas , David Bouyssié , Michel Rossignol , Simona-Maria Vesa , Jérôme Fromentin , et al.
Molecular and Cellular Proteomics, 2009, 8, pp.2186-2198. ⟨10.1074/mcp.M900090-MCP200⟩
Article dans une revue hal-02661848v1
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Mascot File Parsing and Quantification (MFPaQ), a New Software to Parse, Validate, and Quantify Proteomics Data Generated by ICAT and SILAC Mass Spectrometric Analyses APPLICATION TO THE PROTEOMICS STUDY OF MEMBRANE PROTEINS FROM PRIMARY HUMAN ENDOTHELIAL CELLS

 David Bouyssié , Anne Gonzalez de Peredo , Emmanuelle Mouton , Renaud Albigot , Lucie Roussel , et al.
Molecular and Cellular Proteomics, 2007, 6 (9), pp.1621-1637. ⟨10.1074/mcp.t600069-mcp200⟩
Article dans une revue hal-03080279v1
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Extensive Analysis of the Cytoplasmic Proteome of Human Erythrocytes Using the Peptide Ligand Library Technology and Advanced Mass Spectrometry

 Florence Roux-Dalvai , Anne Gonzalez de Peredo , Carolina Simó , Luc Guerrier , David Bouyssié , et al.
Molecular and Cellular Proteomics, 2008, 7 (11), pp.2254-2269. ⟨10.1074/mcp.m800037-mcp200⟩
Article dans une revue hal-03080269v1
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Label-free Quantitative Urinary Proteomics Identifies the Arginase Pathway as a New Player in Congenital Obstructive Nephropathy

 Chrystelle Lacroix , Cécile Caubet , Anne Gonzalez-De-Peredo , Benjamin Breuil , David Bouyssié , et al.
Molecular and Cellular Proteomics, 2014, 13 (12), pp.3421-3434. ⟨10.1074/mcp.m114.040121⟩
Article dans une revue hal-03080184v1
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Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods

 Claire Ramus , Agnès Hovasse , Marlène Marcellin , Anne-Marie Hesse , Emmanuelle Mouton-Barbosa , et al.
Data in Brief, 2016, 6, pp.286-294. ⟨10.1016/j.dib.2015.11.063⟩
Article dans une revue hal-03080142v1
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A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics

 Bart van Puyvelde , Simon Daled , Sander Willems , Ralf Gabriels , Anne Gonzalez de Peredo , et al.
Scientific Data , 2022, 9 (1), pp.126. ⟨10.1038/s41597-022-01216-6⟩
Article dans une revue hal-03766167v1
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Benchmarking quantitative label-free LC–MS data processing workflows using a complex spiked proteomic standard dataset

 Claire Ramus , Agnès Hovasse , Marlène Marcellin , Anne-Marie Hesse , Emmanuelle Mouton-Barbosa , et al.
Journal of Proteomics, 2016, 132, pp.51-62. ⟨10.1016/j.jprot.2015.11.011⟩
Article dans une revue hal-02083890v1

Quantitative proteomic analysis to decipher the differential apoptotic response of bortezomib-treated APL cells before and after retinoic acid differentiation reveals involvement of protein toxicity mechanisms

 Sandrine Uttenweiler-Joseph , David Bouyssié , David Calligaris , Pierre Lutz , Bernard Monsarrat , et al.
Proteomics, 2013, 13 (1), pp.37-47. ⟨10.1002/pmic.201200233⟩
Article dans une revue istex hal-02406499v1
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Lamellar Bodies of Human Epidermis : Proteomics Characterization by High Throughput Mass Spectrometry and Possible Involvement of CLIP-170 in their Trafficking/Secretion

 Anne-Aurélie Raymond , Anne Gonzalez de Peredo , Alexandre Stella , Akemi Ishida-Yamamoto , David Bouyssié , et al.
Molecular and Cellular Proteomics, 2008, 7 (11), pp.2151-2175. ⟨10.1074/mcp.m700334-mcp200⟩
Article dans une revue hal-03080272v1
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Good Vibrations: Structural Remodeling of Maturing Yeast Pre-40S Ribosomal Particles Followed by Cryo-Electron Microscopy

 Ramtin Shayan , Dana Rinaldi , Natacha Larburu , Laura Plassart , Stéphanie Balor , et al.
Molecules, 2020, 25 (5), pp.1125. ⟨10.3390/molecules25051125⟩
Article dans une revue hal-02998843v1
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In-depth exploration of cerebrospinal fluid by combining peptide ligand library treatment and label-free protein quantification.

 Emmanuelle Mouton-Barbosa , Florence Roux-Dalvai , David Bouyssié , François R. Berger , Eric Schmidt , et al.
Molecular and Cellular Proteomics, 2010, 9 (5), pp.1006-21. ⟨10.1074/mcp.M900513-MCP200⟩
Article dans une revue inserm-00498129v1
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HDX-Viewer: interactive 3D visualization of hydrogen–deuterium exchange data

 David Bouyssié , Jean Lesne , Marie Locard-Paulet , Renaud Albigot , Odile Burlet-Schiltz , et al.
Bioinformatics, 2019, 35, pp.5331 - 5333. ⟨10.1093/bioinformatics/btz550⟩
Article dans une revue hal-02332392v1
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A community proposal to integrate proteomics activities in ELIXIR

 Juan Antonio Vizcaíno , Mathias Walzer , Rafael Jimenez , Wout Bittremieux , David Bouyssié , et al.
F1000Research, 2017, 6, pp.875. ⟨10.12688/f1000research.11751.1⟩
Article dans une revue hal-02083641v1
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mzDB: A File Format Using Multiple Indexing Strategies for the Efficient Analysis of Large LC-MS/MS and SWATH-MS Data Sets

 David Bouyssié , Marc François Pierre Dubois , Sara Nasso , Anne Gonzalez de Peredo , Odile Burlet-Schiltz , et al.
Molecular and Cellular Proteomics, 2015, 14 (3), pp.771-781. ⟨10.1074/mcp.o114.039115⟩
Article dans une revue hal-03080211v1

Computational and Mass-Spectrometry-Based Workflow for the Discovery and Validation of Missing Human Proteins: Application to Chromosomes 2 and 14

 Christine Carapito , Lydie Lane , Mohamed Benama , Alisson Opsomer , Emmanuelle Mouton-Barbosa , et al.
Journal of Proteome Research, 2015, 14 (9), pp.3621-3634. ⟨10.1021/pr5010345⟩
Article dans une revue hal-02191518v1
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