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Items: 20

1.

HDX-Viewer: interactive 3D visualization of hydrogen-deuterium exchange data.

Bouyssié D, Lesne J, Locard-Paulet M, Albigot R, Burlet-Schiltz O, Marcoux J.

Bioinformatics. 2019 Jul 9. pii: btz550. doi: 10.1093/bioinformatics/btz550. [Epub ahead of print]

PMID:
31287496
2.

Proceedings of the EuBIC developer's meeting 2018.

Willems S, Bouyssié D, Deforce D, Dorfer V, Gorshkov V, Kopczynski D, Laukens K, Locard-Paulet M, Schwämmle V, Uszkoreit J, Valkenborg D, Vaudel M, Bittremieux W.

J Proteomics. 2018 Sep 15;187:25-27. doi: 10.1016/j.jprot.2018.05.015. Epub 2018 Jun 2.

PMID:
29864591
3.

A community proposal to integrate proteomics activities in ELIXIR.

Vizcaíno JA, Walzer M, Jiménez RC, Bittremieux W, Bouyssié D, Carapito C, Corrales F, Ferro M, Heck AJR, Horvatovich P, Hubalek M, Lane L, Laukens K, Levander F, Lisacek F, Novak P, Palmblad M, Piovesan D, Pühler A, Schwämmle V, Valkenborg D, van Rijswijk M, Vondrasek J, Eisenacher M, Martens L, Kohlbacher O.

F1000Res. 2017 Jun 13;6. pii: ELIXIR-875. doi: 10.12688/f1000research.11751.1. eCollection 2017.

4.

Proceedings of the EuBIC Winter School 2017.

Willems S, Bouyssié D, David M, Locard-Paulet M, Mechtler K, Schwämmle V, Uszkoreit J, Vaudel M, Dorfer V.

J Proteomics. 2017 May 24;161:78-80. doi: 10.1016/j.jprot.2017.04.001. Epub 2017 Apr 4.

PMID:
28385664
5.

Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods.

Ramus C, Hovasse A, Marcellin M, Hesse AM, Mouton-Barbosa E, Bouyssié D, Vaca S, Carapito C, Chaoui K, Bruley C, Garin J, Cianférani S, Ferro M, Dorssaeler AV, Burlet-Schiltz O, Schaeffer C, Couté Y, Gonzalez de Peredo A.

Data Brief. 2015 Dec 17;6:286-94. doi: 10.1016/j.dib.2015.11.063. eCollection 2016 Mar.

6.

Benchmarking quantitative label-free LC-MS data processing workflows using a complex spiked proteomic standard dataset.

Ramus C, Hovasse A, Marcellin M, Hesse AM, Mouton-Barbosa E, Bouyssié D, Vaca S, Carapito C, Chaoui K, Bruley C, Garin J, Cianférani S, Ferro M, Van Dorssaeler A, Burlet-Schiltz O, Schaeffer C, Couté Y, Gonzalez de Peredo A.

J Proteomics. 2016 Jan 30;132:51-62. doi: 10.1016/j.jprot.2015.11.011. Epub 2015 Nov 14.

PMID:
26585461
7.

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

Carapito C, Lane L, Benama M, Opsomer A, Mouton-Barbosa E, Garrigues L, Gonzalez de Peredo A, Burel A, Bruley C, Gateau A, Bouyssié D, Jaquinod M, Cianferani S, Burlet-Schiltz O, Van Dorsselaer A, Garin J, Vandenbrouck Y.

J Proteome Res. 2015 Sep 4;14(9):3621-34. doi: 10.1021/pr5010345. Epub 2015 Jul 22.

PMID:
26132440
8.

mzDB: a file format using multiple indexing strategies for the efficient analysis of large LC-MS/MS and SWATH-MS data sets.

Bouyssié D, Dubois M, Nasso S, Gonzalez de Peredo A, Burlet-Schiltz O, Aebersold R, Monsarrat B.

Mol Cell Proteomics. 2015 Mar;14(3):771-81. doi: 10.1074/mcp.O114.039115. Epub 2014 Dec 11.

9.

Label-free quantitative urinary proteomics identifies the arginase pathway as a new player in congenital obstructive nephropathy.

Lacroix C, Caubet C, Gonzalez-de-Peredo A, Breuil B, Bouyssié D, Stella A, Garrigues L, Le Gall C, Raevel A, Massoubre A, Klein J, Decramer S, Sabourdy F, Bandin F, Burlet-Schiltz O, Monsarrat B, Schanstra JP, Bascands JL.

Mol Cell Proteomics. 2014 Dec;13(12):3421-34. doi: 10.1074/mcp.M114.040121. Epub 2014 Sep 9.

10.

Bacterial protein-O-mannosylating enzyme is crucial for virulence of Mycobacterium tuberculosis.

Liu CF, Tonini L, Malaga W, Beau M, Stella A, Bouyssié D, Jackson MC, Nigou J, Puzo G, Guilhot C, Burlet-Schiltz O, Rivière M.

Proc Natl Acad Sci U S A. 2013 Apr 16;110(16):6560-5. doi: 10.1073/pnas.1219704110. Epub 2013 Apr 2.

11.

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.

Uttenweiler-Joseph S, Bouyssié D, Calligaris D, Lutz PG, Monsarrat B, Burlet-Schiltz O.

Proteomics. 2013 Jan;13(1):37-47. doi: 10.1002/pmic.201200233. Epub 2012 Dec 4.

PMID:
23135970
12.

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

Barsan C, Zouine M, Maza E, Bian W, Egea I, Rossignol M, Bouyssie D, Pichereaux C, Purgatto E, Bouzayen M, Latché A, Pech JC.

Plant Physiol. 2012 Oct;160(2):708-25. doi: 10.1104/pp.112.203679. Epub 2012 Aug 20.

13.

Label-free quantification and shotgun analysis of complex proteomes by one-dimensional SDS-PAGE/NanoLC-MS: evaluation for the large scale analysis of inflammatory human endothelial cells.

Gautier V, Mouton-Barbosa E, Bouyssié D, Delcourt N, Beau M, Girard JP, Cayrol C, Burlet-Schiltz O, Monsarrat B, Gonzalez de Peredo A.

Mol Cell Proteomics. 2012 Aug;11(8):527-39. doi: 10.1074/mcp.M111.015230. Epub 2012 Apr 19.

14.

Comprehensive human urine standards for comparability and standardization in clinical proteome analysis.

Mischak H, Kolch W, Aivaliotis M, Bouyssié D, Court M, Dihazi H, Dihazi GH, Franke J, Garin J, Gonzalez de Peredo A, Iphöfer A, Jänsch L, Lacroix C, Makridakis M, Masselon C, Metzger J, Monsarrat B, Mrug M, Norling M, Novak J, Pich A, Pitt A, Bongcam-Rudloff E, Siwy J, Suzuki H, Thongboonkerd V, Wang LS, Zoidakis J, Zürbig P, Schanstra JP, Vlahou A.

Proteomics Clin Appl. 2010 Apr;4(4):464-78. doi: 10.1002/prca.200900189. Epub 2010 Feb 3.

15.

In-depth exploration of cerebrospinal fluid by combining peptide ligand library treatment and label-free protein quantification.

Mouton-Barbosa E, Roux-Dalvai F, Bouyssié D, Berger F, Schmidt E, Righetti PG, Guerrier L, Boschetti E, Burlet-Schiltz O, Monsarrat B, Gonzalez de Peredo A.

Mol Cell Proteomics. 2010 May;9(5):1006-21. doi: 10.1074/mcp.M900513-MCP200. Epub 2010 Jan 21.

16.

Chronic ethanol feeding affects proteasome-interacting proteins.

Bousquet-Dubouch MP, Nguen S, Bouyssié D, Burlet-Schiltz O, French SW, Monsarrat B, Bardag-Gorce F.

Proteomics. 2009 Jul;9(13):3609-22. doi: 10.1002/pmic.200800959.

17.

Quantitative proteomics reveals a dynamic association of proteins to detergent-resistant membranes upon elicitor signaling in tobacco.

Stanislas T, Bouyssie D, Rossignol M, Vesa S, Fromentin J, Morel J, Pichereaux C, Monsarrat B, Simon-Plas F.

Mol Cell Proteomics. 2009 Sep;8(9):2186-98. doi: 10.1074/mcp.M900090-MCP200. Epub 2009 Jun 13.

18.

Lamellar bodies of human epidermis: proteomics characterization by high throughput mass spectrometry and possible involvement of CLIP-170 in their trafficking/secretion.

Raymond AA, Gonzalez de Peredo A, Stella A, Ishida-Yamamoto A, Bouyssie D, Serre G, Monsarrat B, Simon M.

Mol Cell Proteomics. 2008 Nov;7(11):2151-75. doi: 10.1074/mcp.M700334-MCP200. Epub 2008 Jul 12.

19.

Extensive analysis of the cytoplasmic proteome of human erythrocytes using the peptide ligand library technology and advanced mass spectrometry.

Roux-Dalvai F, Gonzalez de Peredo A, Simó C, Guerrier L, Bouyssié D, Zanella A, Citterio A, Burlet-Schiltz O, Boschetti E, Righetti PG, Monsarrat B.

Mol Cell Proteomics. 2008 Nov;7(11):2254-69. doi: 10.1074/mcp.M800037-MCP200. Epub 2008 Jul 9.

20.

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.

Bouyssié D, Gonzalez de Peredo A, Mouton E, Albigot R, Roussel L, Ortega N, Cayrol C, Burlet-Schiltz O, Girard JP, Monsarrat B.

Mol Cell Proteomics. 2007 Sep;6(9):1621-37. Epub 2007 May 28.

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