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Siebert C, Lindgren H, Ferré S, Villers C, Boisset S, Perard J, Sjöstedt A, Maurin M, Brochier-Armanet C, Couté Y, Renesto P.
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Sonego M, Pellarin I, Costa A, Rampioni Vinciguerra GL, Coan M, Kraut A, D’Andrea S, Dall’Acqua A, Cacsire Castillo-Tong D, Califano D, Losito S, Spizzo R, Couté Y, Vecchione A, Belletti B, Schiappacassi M, Baldassarre G.
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Legendre M, Alempic JM, Philippe N, Lartigue A, Jeudy S, Poirot O, Ta NT, Nin S, Couté Y, Abergel C, Claverie JM.
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Wei J, Kishton RJ, Angel M, Conn CS, Dalla-Venezia N, Marcel V, Vincent A, Catez F, Ferré S, Ayadi L, Marchand V, Dersh D, Gibbs JS, Ivanov IP, Fridlyand N, Couté Y, Diaz JJ, Qian SB, Staudt LM, Restifo NP, Yewdell JW.
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Hajj Chehade M, Pelosi L, Fyfe CD, Loiseau L, Rascalou B, Brugière S, Kazemzadeh K, Vo CD, Ciccone L, Aussel L, Couté Y, Fontecave M, Barras F, Lombard M, Pierrel F.
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Lupette J, Jaussauda A, Seddikia K, Morabitoa C, Brugière S, Schallerc H, Kuntz M, Putaux J-L, Jouneau P-H, Rébeillé F, Falconet D, Couté Y, Jouhet J, Tardif M, Salvaing J, Maréchal E.
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Guillot L, Delage L, Viari A, Vandenbrouck Y, Com E, Ritter A, Lavigne R, Marie D, Peterlongo P, Potin P and Pineau C.
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Do LD, Gupton SL, Tanji K, Bastien J, Brugière S, Couté Y, Quadrio I, Rogemond V, Fabien N, Desestret V, Honnorat J.
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Hahn F, Hutterer C, Henry C, Hamilton ST, Strojan H, Kraut A, Schulte U, Schütz M, Kohrt S, Wangen C, Pfizer J, Couté Y, Rawlinson WD, Strobl S, Marschall M.
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Adam C, Guérois R, Citarella A, Verardi L, Adolphe F, Béneut C, Sommermeyer V, Ramus C, Govin J, Couté Y, Borde V.
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De Muyt A, Pyatnitskaya A, Andréani J, Ranjha L, Ramus C, Laureau R, Fernandez-Vega A, Holoch D, Girard E, Govin J, Margueron R, Couté Y, Cejka P, Guérois R, Borde V.
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Rayapuram N, Bigeard J, Alhoraibi H, Bonhomme L, Hesse AM, Vinh J, Hirt H, Pflieger D.
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Salvi D, Bournais S, Moyet L, Bouchnak I, Kuntz M, Bruley C, Rolland N.
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Lacombe M, Marie-Desvergne C, Combes F, Kraut A, Bruley C, Vandenbrouck Y, Chamel Mossuz V, Couté Y, Brun V.
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Aillaud C, Bosc C, Peris L, Bosson A, Heemeryck P, Van Dijk J, Le Friec J, Boulan B, Vossier F, Sanman LE, Syed S, Amara N, Couté Y, Lafanechère L, Denarier E, Delphin C, Pelletier L, Humbert S, Bogyo M, Andrieux A, Rogowski K, Moutin MJ.
Vasohibins/SVBP are tubulin carboxypeptidases (TCP) that regulate neuron differentiation.
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Erales J, Marchand V, Panthu B, Gillot S, Belin S, Ghayad SE, Garcia M, Laforêts F, Marcel V, Baudin-Baillieu A, Bertin P, Couté Y, Adrait A, Meyer M, Therizols G, Yusupov M, Namy O, Ohlmann T, Motorin Y, Catez F, Diaz JJ.
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Barral S, Morozumi Y, Tanaka H, Montellier E, Govin J, de Dieuleveult M, Charbonnier G, Couté Y, Puthier D, Buchou T, Boussouar F, Urahama T, Fenaille F, Curtet S, Héry P, Fernandez-Nunez N, Shiota H, Gérard M, Rousseaux S, Kurumizaka H, Khochbin S.
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Duriez E, Masselon CD, Mesmin C, Court M, Demeure K, Allory Y, Malats N, Matondo M, Radvanyi F, Garin J, Domon B.
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Mietton F, Ferri E, Champleboux M, Zala N, Maubon D, Zhou Y, Harbut M, Spittler D, Garnaud C, Courçon M, Chauvel M, d’Enfert C, Kashemirov BA, Hull M, Cornet M, McKenna CE, Govin J, Petosa C.
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Introducing plasma/serum glycodepletion for the targeted proteomics analysis of cytolysis biomarkers.
Talanta. 2017 Aug 1;170:473-480. PubMed PMID: 28501198.

Sorigué D, Légeret B, Cuiné S, Blangy S, Moulin S, Billon E, Richaud P, Brugière S, Couté Y, Nurizzo D, Müller P, Brettel K, Pignol D, Arnoux P, Li-Beisson Y, Peltier G, Beisson F. 
An algal photoenzyme converts fatty acids to hydrocarbons.
Science. 2017 Sep 1;357(6354):903-907. PubMed PMID: 28860382.

Gloaguen P, Bournais S, Alban C, Ravanel S, Seigneurin-Berny D, Matringe M, Tardif M, Kuntz M, Ferro M, Bruley C, Rolland N, Vandenbrouck Y*, Curien G.
ChloroKB: a web-application for the integration of knowledge related to chloroplast metabolic network.
Plant Physiol. 2017 Apr 25.doi: 10.1104/pp.17.00242. PubMed PMID: 28442501.

El Kennani S, Adrait A, Shaytan AK, Khochbin S, Bruley C, Panchenko AR, Landsman D, Pflieger D, Govin J.
MS_HistoneDB, a manually curated resource for proteomic analysis of human and mouse histones.
Epigenetics Chromatin. 2017 Jan 10;10:2. doi: 10.1186/s13072-016-0109-x.PMID:28096900.

Gilquin B, Louwagie M, Jaquinod M, Cez A, Picard G, El Kholy L, Surin B, Garin J, Ferro M, Kofman T, Barau C, Plaisier E, Ronco P, Brun V.
Multiplex and accurate quantification of acute kidney injury biomarker candidates in urine using Protein Standard Absolute Quantification (PSAQ) and targeted proteomics.
Talanta. 2017 Mar 1;164:77-84. PubMed PMID: 28107998.

Boruc J, Weimer AK, Stoppin-Mellet V, Mylle E, Kosetsu K, Cedeño C, Jaquinod M, Njo M, De Milde L, Tompa P, Gonzalez N, Inzé D, Beeckman T, Vantard M, Van Damme D.
Phosphorylation of MAP65-1 by Arabidopsis Aurora Kinases Is Required for Efficient Cell Cycle Progression.
Plant Physiol. 2017 Jan;173(1):582-599. PubMed PMID: 27879390.

García-Oliver E, Ramus C, Perot J, Arlotto M, Champleboux M, Mietton F, Battail C, Boland A, Deleuze JF, Ferro M, Couté Y, Govin J.
Bdf1 Bromodomains are Essential for Meiosis and the Expression of Meiotic-Specific Genes.
PLoS Genet. 2017 Jan 9;13(1):e1006541. PubMed PMID: 28068333.

Do LD, Chanson E, Desestret V, Joubert B, Ducray F, Brugière S, Couté Y, Formaglio M, Rogemond V, Thomas-Antérion C, Borrega L, Laurens B, Tison F, Curot J, De Brouker T, Lebrun-Frenay C, Delattre JY, Antoine JC, Honnorat J.
Characteristics in limbic encephalitis with anti-adenylate kinase 5 autoantibodies.
Neurology. 2017, in press. PubMed PMID: 28062719.

Gilquin B, Jaquinod M, Louwagie M, Kieffer-Jaquinod S, Kraut A, Ferro M, Becher F, Brun V.
A proteomics assay to detect eight CBRN-relevant toxins in food.
Proteomics. 2017 Jan;17(1-2). PubMed PMID: 28008711.

Wieczorek S, Combes F, Lazar C, Giai Gianetto Q, Gatto L, Dorffer A, Hesse AM, Couté Y, Ferro M, Bruley C, Burger T.
DAPAR & ProStaR: software to perform statistical analyses in quantitative discovery proteomics.
Bioinformatics. 2017 Jan 1;33(1):135-136. PubMed PMID: 27605098.

VAN Lis R, Popek M, Coute Y, Kosta A, Drapier D, Nitschke W, Atteia A.
Concerted upregulation of aldehyde/alcohol dehydrogenase (ADHE) and starch in Chlamydomonas reinhardtii increases survival under dark anoxia.
J Biol Chem. 2017 Feb 10;292(6):2395-2410. PubMed PMID: 28007962.


Garnaud C, Champleboux M, Maubon D, Cornet M, Govin J.
Histone Deacetylases and Their Inhibition in Candida Species.
Front Microbiol. 2016 Aug 5;7:1238. doi: 10.3389/fmicb.2016.01238. Review. PubMed PMID: 27547205.

Lee H, Mun DG, So JE, Bae J, Kim H, Masselon C, Lee SW.
Efficient Exploitation of Separation Space in Two-Dimensional Liquid Chromatography System for Comprehensive and Efficient Proteomic Analyses.
Anal Chem. 2016 Dec 6;88(23):11734-11741. PubMed PMID: 27801565.

Cerveau D, Kraut A, Stotz HU, Mueller MJ, Couté Y, Rey P.
Characterization of the Arabidopsis thaliana 2-Cys peroxiredoxin interactome.
Plant Sci. 2016 Nov;252:30-41. PMID: 27717466.

Osseni A, Sébastien M, Sarrault O, Baudet M, Couté Y, Fauré J, Fourest-Lieuvin A, Marty I.
Triadin and CLIMP-63 form a link between triads and microtubules in muscle cells.
J Cell Sci. 2016 Aug 25. PMID: 27562070.

Steingruber M, Kraut A, Socher E, Sticht H, Reichel A, Stamminger T, Amin B, Couté Y, Hutterer C, Marschall M.
Proteomic Interaction Patterns between Human Cyclins, the Cyclin-Dependent Kinase Ortholog pUL97 and Additional Cytomegalovirus Proteins.
Viruses. 2016 Aug 18;8(8). PMID: 27548200.

Gay G, Braun L, Brenier-Pinchart MP, Vollaire J, Josserand V, Bertini RL, Varesano A, Touquet B, De Bock PJ, Coute Y, Tardieux I, Bougdour A, Hakimi MA.
Toxoplasma gondii TgIST co-opts host chromatin repressors dampening STAT1-dependent gene regulation and IFN-γ-mediated host defenses.
J Exp Med. 2016 Aug 8. PMID: 27503074.

Goold HD, Cuiné S, Légeret B, Liang Y, Brugière S, Auroy P, Javot H, Tardif M, Jones B, Beisson F, Peltier G, Li-Beisson Y.
Saturating Light Induces Sustained Accumulation of Oil in Plastidal Lipid Droplets in Chlamydomonas reinhardtii.
Plant Physiol. 2016 Aug;171(4):2406-17. PMID: 27297678.

Tarasova IA, Masselon CD, Gorshkov AV, Gorshkov MV.
Predictive chromatography of peptides and proteins as a complementary tool for proteomics.
Analyst. 2016 Aug 2;141(16):4816-32. PMID: 27419248.

Hodille E, Alekseeva L, Berkova N, Serrier A, Badiou C, Gilquin B, Brun V, Vandenesch F, Terman DS, Lina G.
Staphylococcal Enterotoxin O Exhibits Cell Cycle Modulating Activity.
Front Microbiol. 2016 Apr 15;7:441. PMID: 27148168.

Wagner R, von Sydow L, Aigner H, Netotea S, Brugière S, Sjögren L, Ferro M, Clarke A, Funk C.
Deletion of FtsH11 protease has impact on chloroplast structure and function in Arabidopsis thaliana when grown under continuous light.
Plant Cell Environ. 2016 Aug 1. PMID: 27479913.

Monkkonen L, Edgar JS, Winters D, Heron SR, Mackay CL, Masselon CD, Stokes AA, Langridge-Smith PR, Goodlett DR.
Screen-printed digital microfluidics combined with surface acoustic wave nebulization for hydrogen-deuterium exchange measurements.
J Chromatogr A. 2016 Mar 25;1439:161-6. PMID: 26826755.

Hesse AM, Dupierris V, Adam C, Court M, Barthe D, Emadali A, Masselon C, Ferro M, Bruley C*.
hEIDI: An intuitive application tool to organize and treat large-scale proteomics data.
J Proteome Res. 2016 Aug 25. PMID: 27560970.

Vandenbrouck Y*, Lane L, Carapito C, Duek P, Rondel K, Bruley C, Macron C, Gonzalez de Peredo A, Couté Y, Chaoui K, Com E, Gateau A, Hesse AM, Marcellin M, Mear L, Mouton-Barbosa E, Robin T, Burlet-Schiltz O, Cianférani S, Ferro M, Freour T, Lindskog C, Garin J, Pineau C.
Looking for missing proteins in the proteome of human spermatozoa: an update.
J Proteome Res. 2016 Jul 22. PMID: 27444420.

Deutsch EW, Overall CM, Van Eyk JE, Baker MS, Paik YK, Weintraub ST, Lane L,Martens L, Vandenbrouck Y, Kusebauch U, Hancock WS, Hermjakob H, Aebersold R, Moritz RL, Omenn GS.
Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 2.1.
J Proteome Res. 2016 Aug 4. PMID:27490519.

Duek P, Bairoch A, Gateau A, Vandenbrouck Y, Lane L.
Missing Protein Landscape of Human Chromosomes 2 and 14: Progress and Current Status.
J Proteome Res. 2016 Aug 17. PMID: 27487287

Petropoulos C, Oddou C, Emadali A, Hiriart-Bryant E, Boyault C, Faurobert E, Vande Pol S, Kim-Kaneyama JR, Kraut A, Coute Y, Block M, Albiges-Rizo C, Destaing O.
Roles of paxillin family members in adhesion and ECM degradation coupling at invadosomes.
J Cell Biol. 2016 Jun 6;213(5):585-99. PMID: 27269065.

Sabra A, Leiba J, Mas L, Louwagie M, Couté Y, Journet A, Cosson P, Aubry L.
Pycnosomes: Condensed Endosomal Structures Secreted by Dictyostelium Amoebae.
PLoS One. 2016 May 17;11(5):e0154875. PMID: 27187592.

Giai Gianetto Q, Couté Y, Bruley C, Burger T*.
Uses and misuses of the fudge factor in quantitative discovery proteomics.
Proteomics. 2016 Jan;16(1):29-32. PMID: 26572953.

Salvetti A, Couté Y, Epstein A, Arata L, Kraut A, Navratil V, Bouvet P, Greco A.
Nuclear functions of nucleolin through global proteomics and interactomic approaches.
J Proteome Res. 2016. PMID: 27049334.

Ma S, Martin-Laffon J, Mininno M, Gigarel O, Brugière S, Bastien O, Tardif M, Ravanel S, Alban C.
Molecular Evolution of the Substrate Specificity of Chloroplastic Aldolases/Rubisco Lysine Methyltransferases in Plants.
Mol Plant. 2016 Apr 4;9(4):569-81. PMID: 26785049

Pinaud S, Portela J, Duval D, Nowacki FC, Olive MA, Allienne JF, Galinier R, Dheilly NM, Kieffer-Jaquinod S, Mitta G, Théron A, Gourbal B.
A Shift from Cellular to Humoral Responses Contributes to Innate Immune Memory in the Vector Snail Biomphalaria glabrata.
PLoS Pathog. 2016 Jan 6;12(1):e1005361.

Michaud M, Gros V, Tardif M, Brugière S, Ferro M, Prinz WA, Toulmay A, Mathur J, Wozny M, Falconet D, Maréchal E, Block MA, Jouhet J.
AtMic60 Is Involved in Plant Mitochondria Lipid Trafficking and Is Part of a Large Complex.
Curr Biol. 2016 ;26(5):627-39. PMID:26898467.

Lazar  C, Gatto L, Ferro M, Bruley C, Burger T.*
Accounting for the multiple natures of missing values in label-free quantitative proteomics datasets to compare imputation strategies.
J. Proteome Res., 2016, 15 (4), pp 1116–1125. PMID: 26906401.

Burger T.
Geometric views on conflicting mass functions: from distances to angles.
International Journal of Approximate Reasoning. vol. 70, pp. 36-50, December 2015.

Farina F, Gaillard J, Guérin C, Couté Y, Sillibourne J, Blanchoin L, Théry M.
The centrosome is an actin-organizing centre.
Nat Cell Biol. 2016 Jan;18(1):65-75. PMID: 26655833

Zatylny-Gaudin C, Cornet V, Leduc A, Zanuttini B, Corre E, Le Corguillé G, Bernay B, Garderes J, Kraut A, Couté Y, Henry J.
Neuropeptidome of the cephalopod Sepia officinalis: identification, tissue mapping and expression pattern of neuropeptides and neurohormones during egg-laying.
J Proteome Res. 2016 Jan 4;15(1):48-67. PMID: 26632866

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, de Peredo AG.
Benchmarking quantitative label-free LC-MS data processing workflows using a complex spiked proteomic standard dataset.
J Proteomics. 2016 Jan 30;132:51-62. PMID: 26585461

Giai Gianetto Q, Combes F, Ramus C, Bruley C, Couté Y, Burger T*.
Calibration Plot for Proteomics (CP4P): A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments.
Proteomics. 2016, 16(1):29-32. PMID: 26572953


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.
Spiked proteomic standard dataset for testing label-free quantitative software and statistical methods.
Data Brief. 2015 Dec 17;6:286-94.PMID: 26862574.

Reichmann D, Couté Y, Ollagnier de Choudens S.
Dual Activity of Quinolinate Synthase: Triose Phosphate Isomerase and Dehydration Activities Play Together To Form Quinolinate.
Biochemistry. 2015 Oct 27;54(42):6443-6. PMID: 26455817.

Legendre M, Lartigue A, Bertaux L, Jeudy S, Bartoli J, Lescot M, Alempic JM, Ramus C, Bruley C, Labadie K, Shmakova L, Rivkina E, Couté Y, Abergel C, Claverie JM.
In-depth study of Mollivirus sibericum, a new 30,000-y-old giant virus infecting Acanthamoeba.
Proc Natl Acad Sci U S A. 2015. PMID: 26351664.

Vilmont V, Filhol O, Hesse AM, Couté Y, Hue C, Rémy-Tourneur L, Mistou S, Cochet C, Chiocchia G.
Modulatory role of the anti-apoptotic Protein kinase CK2 in the sub-cellular localization of Fas associated death domain protein (FADD).
Biochim Biophys Acta. 2015 Aug 5;1853(11 Pt A):2885-2896. PMID: 26253696.

Mladenov P, Finazzi G, Bligny R, Moyankova D, Zasheva D, Boisson AM, Brugière S, Krasteva V, Alipieva K, Simova S, Tchorbadjieva M, Goltsev V, Ferro M, Rolland N, Djilianov D.
In vivo spectroscopy and NMR metabolite fingerprinting approaches to connect the dynamics of photosynthetic and metabolic phenotypes in resurrection plant Haberlea rhodopensis during desiccation and recovery.
Front Plant Sci. 2015 Jul 21;6:564. PMID: 26257765.

Mazzoleni M, Figuet S, Martin-Laffon J, Mininno M, Gilgen A, Leroux M, Brugière S, Tardif M, Alban C, Ravanel S.
Dual Targeting of the Protein Methyltransferase PrmA Contributes to Both Chloroplastic and Mitochondrial Ribosomal Protein L11 Methylation in Arabidopsis.
Plant Cell Physiol. 2015. PMID: 26116422.

Dupré M, Gilquin B, Fenaille F, Féraudet-Tarisse C, Dano J, Ferro M, Simon S, Junot C, Brun V, Becher F.
Multiplex Quantification of Protein Toxins in Human Biofluids and Food Matrices using Immunoextraction and High-Resolution Targeted Mass Spectrometry.
Anal Chem. 2015 Jul 13. PMID:26167627.

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, Cianférani S, Burlet-Schiltz O, Van Dorsselaer A, Garin J, Vandenbrouck Y*.
Computational and mass spectrometry-based workflow for the discovery and validation of missing human proteins: application to chromosomes 2 and 14.
J Proteome Res. 2015 July 1. PMID: 26132440.

Le Roux C, Huet G, Jauneau A, Camborde L, Trémousaygue D, Kraut A, Zhou B, Levaillant M, Adachi H, Yoshioka H, Raffaele S, Berthomé R, Couté Y, Parker JE, Deslandes L.
A receptor pair with an integrated decoy converts pathogen disabling of transcription factors to immunity.
Cell. 2015 May 21;161(5):1074-88. PMID: 26000483.

Champleboux M, Govin J*.
Bromodomains shake the hegemony of pan-acetyl antibodies.
Proteomics. 2015 May;15(9):1457-8. PMID: 25825234.

Penzo M, Rocchi L, Brugiere S, Carnicelli D, Onofrillo C, Couté Y, Brigotti M, Montanaro L.
Human ribosomes from cells with reduced dyskerin levels are intrinsically altered in translation.
FASEB J. 2015 May 1. PMID: 25934701.

Sage E, Brenac A, Alava T, Morel R, Dupré C, Hanay MS, Roukes ML, Duraffourg L, Masselon C, Hentz S.
Neutral particle mass spectrometry with nanomechanical systems.
Nat Commun. 2015 Mar 10;6:6482. PMID: 25698751.

Lebert D, Picard G, Beau-Larvor C, Troncy L, Lacheny C, Maynadier B, Low W, Mouz N, Brun V, Klinguer-Hamour C, Jaquinod M, Beck A.
Absolute and multiplex quantification of antibodies in serum using PSAQ™ standards and LC-MS/MS.
Bioanalysis. 2015 Apr 21:1-15. PMID: 25898209.

Chassefeyre R, Martínez-Hernández J, Bertaso F, Bouquier N, Blot B, Laporte M, Fraboulet S, Couté Y, Devoy A, Isaacs AM, Pernet-Gallay K, Sadoul R, Fagni L, Goldberg Y.
Regulation of Postsynaptic Function by the Dementia-Related ESCRT-III Subunit CHMP2B.
J Neurosci. 2015 Feb 18;35(7):3155-73. PMID: 25698751.

Lebert D, Louwagie M, Goetze S, Picard G, Ossola R, Duquesne C, Basler K, Ferro M, Rinner O, Aebersold R, Garin J, Mouz N, Brunner E, Brun V*.
DIGESTIF: A Universal Quality Standard for the Control of Bottom-Up Proteomics Experiments.
J Proteome Res. 2015. 14(2):787-803. PMID: 25495225.

Couderc C, Bollard J, Couté Y, Massoma P, Poncet G, Lepinasse F, Hervieu V, Gadot N, Sanchez JC, Scoazec JY, Diaz JJ, Roche C.
Mechanisms of local invasion in enteroendocrine tumors: identification of novel candidate cytoskeleton-associated proteins in an experimental mouse model by a proteomic approach and validation in human tumors.
Mol Cell Endocrinol. 2015. 399: 154-163. PMID: 25224486.

Court M, Garin J and Masselon CD*.
Urine sample preparation and fractionation for global proteome profiling by LC-MS.
Methods in Molecular Biology, 2015. 1243: 175-186. PMID: 25384746.

Kessentini Y, Burger T and Paquet T.
A Dempster–Shafer Theory based combination of handwriting recognition systems with multiple rejection strategies.
Pattern Recognition, 2015, 48(2): 534–544

Pichon F, Destercke S, Burger T.
A consistency-specificity trade-off to select source behavior in information fusion.
IEEE Trans Cybern. 2015. PMID: 25291804.

Vanhove AS, Duperthuy M, Charrière GM, Le Roux F, Goudenège D, Gourbal B, Kieffer-Jaquinod S, Couté Y, Wai SN, Destoumieux-Garzón D. 
Outer membrane vesicles are vehicles for the delivery of Vibrio tasmaniensis virulence factors to oyster immune cells.
Environ Microbiol. 2015 Jun 11. PMID: 24919412.


Schild F, Kieffer-Jaquinod S, Palencia A, Cobessi D, Sarret G, Zubieta C, Jourdain A, Dumas R, Forge V, Testemale D, Bourguignon J and Hugouvieux V.
Biochemical and biophysical characterization of the Selenium binding and reducing site in Arabidopsis thaliana homologue to mammals Selenium Binding Protein 1.
Journal of Biological Chemistry, 2014. 289:31765-76. PMID: 25274629.

Chapman JD, Goodlett DR and Masselon CD*.
Multiplexed and data-independent tandem mass spectrometry for global proteome profiling.
Mass Spectrometry Reviews, 2014, 33(5): 452-470. PMID: 24281846

Biard D, Filhol-Cochet O and Vandenbrouck Y*.
Tame the expression of the genes with DSIR.
Biofutur, 2014. 360:52-55.

Poirier AC, Schmitt P, Rosa RD, Vanhove AS, Kieffer-Jaquinod S, Rubio TP, Charrière GM, Destoumieux-Garzón D.
Antimicrobial histones and DNA traps in invertebrate immunity: evidences in Crassostrea gigas.
J Biol Chem. 2014. 289(36):24821-31.

Courty, G. Xing, J. Vandel, T. Burger.
SAGA: Sparse And Geometry-Aware non-negative matrix factorization through non-linear local embedding. Machine Learning, 97(1-2), pp. 205-226, 2014.

Niarakis A, Bounab Y, Grieco L, Roncagalli R, Hesse AM, Garin J, Malissen B, Daeron M and Thieffry D.
Computational modeling of the main signaling pathways involved in mast cell activation.
Current Topics in Microbiology and Immunology. 2014. 382: 69-93. PMID: 25116096.

T Burger.
Geometric interpretations of conflict: a viewpoint
proceedings of the 3rd International Conference on Belief Functions (BELIEF 2014), LNCS Vol. 8764, pp. 412-421, 2014.

Estellon J, Ollagnier de Choudens S, Smadja M, Fontecave M, Vandenbrouck Y*.
An integrative computational model for large-scale identification of metalloproteins in microbial genomes: a focus on iron-sulfur cluster proteins.
Metallomics. 2014. 6(10): 1913-1930. PMID: 25117543

Chapel L, Burger T, Courty N and Lefevre S.
PerTurbo manifold learning algorithm for weakly labeled hyperspectral image classification.
IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing, 2014, 7(4): 1070-1078

Engel E, Viargues P, Mortier M, Taillebourg E, Couté Y, Thevenon D, Fauvarque MO.
Identifying USPs regulating immune signals in Drosophila: USP2 deubiquitinates Imd and promotes its degradation by interacting with the proteasome.
Cell Commun Signal. 2014. 12(1):41. PMID: 25027767.

Paša-Tolić L and Masselon C.
Shining a spotlight on intact proteins.
Proteomics 2014. 14(10): 1125-1127

Milbradt J, Kraut A, Hutterer C, Sonntag E, Schmeiser C, Ferro M, Wagner S, Lenac T, Claus C, Pinkert S, Hamilton ST, Rawlinson WD, Sticht H, Coute Y*, Marschall M*.
Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus.
Mol Cell Proteomics. 2014. PMID: 24969177.

Xiol J, Spinelli P, Laussmann MA, Homolka D, Yang Z, Cora E, Couté Y, Conn S, Kadlec J, Sachidanandam R, Kaksonen M, Cusack S, Ephrussi A, Pillai RS.
RNA Clamping by Vasa Assembles a piRNA Amplifier Complex on Transposon Transcripts.
Cell. 2014 157(7): 1698-1711. PMID: 24910301.

Schvartz D, Couté Y, Sanchez JC.
Quantitative proteomics reveals the link between minichromosome maintenance complex and glucose-induced proliferation of rat pancreatic INS-1E β-cells.
J Proteomics. 2014. 108: 163-170. PMID: 24880042.

Tomizioli M, Lazar C, Brugiere S, Burger T, Salvi D, Gatto L, Moyet L, Breckels LM, Hesse AM, Lilley KS, Seigneurin-Berny D, Finazzi G, Rolland N*, Ferro M*.
Deciphering thylakoid sub-compartments using a mass spectrometry-based approach.
Mol Cell Proteomics. 2014. 13(8): 2147-2167. PMID: 24872594.

Gatto L, Breckels LM, Burger T, Nightingale DJ, Groen AJ, Campbell C, Mulvey CM, Christoforou A, Ferro M, Lilley KS.
A foundation for reliable spatial proteomics data analysis.
Mol Cell Proteomics. 2014. 13(8): 1937-52. PMID: 24846987.

Alban C, Tardif M, Mininno M, Brugière S, Gilgen A, Ma S, Mazzoleni M, Gigarel O, Martin-Laffon J, Ferro M, Ravanel S.
Uncovering the protein lysine and arginine methylation network in Arabidopsis chloroplasts.
PLoS One. 2014. 9(4):e95512. PMID: 24748391.

Hardré H, Kuhn L, Albrieux C, Jouhet J, Michaud M, Seigneurin-Berny D, Falconet D, Block MA and Maréchal E.
The selective biotin tagging and thermolysin proteolysis of chloroplast outer envelope proteins reveals information on protein topology and association into complexes.
Frontiers in Plant Science, 2014, 5: 203.

Lafaye C, Barbier E, Miscioscia A, Saint-Pierre C, Kraut A, Couté Y, Plo I, Gasparutto D, Ravanat JL, Breton J. 
DNA binding of the p21 repressor ZBTB2 is inhibited by cytosine hydroxymethylation.
Biochem Biophys Res Commun. 2014, 446(1):341-6. PMID: 24607898.

Legendre M, Bartoli J, Shmakova L, Jeudy S, Labadie K, Adrait A, Lescot M, Poirot O, Bertaux L, Bruley C, Couté Y, Rivkina E, Abergel C, Claverie JM.
Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology.
Proc Natl Acad Sci U S A. 2014, 111(11): 4274-4279. PMID: 24591590.

Doustaly F*, Combes F*, Fiévet JB, Berthet S, Hugouvieux V, Bastien O, Aranjuelo I, Leonhardt N, Rivasseau C, Carrière M, Vavasseur A, Renou JP, Vandenbrouck Y, Bourguignon J.
Uranium perturbs signaling and iron uptake response in Arabidopsis thaliana roots.
Metallomics. 2014, 6:809-821. PMID: 24549117.

van Rooyen JM, Murat JB, Hammoudi PM, Kieffer-jaquinod S, Coute Y,  Sharma A, Pelloux H, Belrhali H, Hakimi, MA
Assembly of the novel five-component apicomplexan multi-aminoacyl-tRNA synthetase complex is driven by the hybrid scaffold protein Tg-p43.
PLoS ONE, 2014, 9(2): e89487. PMID: 24586818.

Gatto L, Breckels LM, Wieczorek S, Burger T, Lilley KS.
Mass-spectrometry-based spatial proteomics data analysis using pRoloc and pRolocdata.
Bioinformatics. 2014, 30: 1322-1324. PMID: 24413670.

Elsen S, Huber P, Bouillot S, Couté Y, Fournier P, Dubois Y, Timsit JF, Maurin M, Attrée I.
A Type III Secretion Negative Clinical Strain of Pseudomonas aeruginosa Employs a Two-Partner Secreted Exolysin to Induce Hemorrhagic Pneumonia.
Cell Host Microbe. 2014 Feb 12;15(2):164-76. PMID: 24528863.

Trauchessec M, Jaquinod M, Bonvalot A, Brun V, Bruley C, Ropers D, De Jong H, Garin J, Bestel-Corre G, Ferro M*.  
Mass spectrometry-based workflow for accurate quantification of E. coli enzymes: how proteomics can play a key role in metabolic engineering.
Mol Cell Proteomics. 2014, 13(4): 954-968. PMID: 24482123.

Legres LG, Janin A, Masselon C, Bertheau P
Beyond laser microdissection technology: follow the yellow brick road for cancer research.
Am J Cancer Res. 2014 Jan 15;4(1):1-28. Review. PMID: 24482735.

Forterre A, Jalabert A, Berger E, Baudet M, Chikh K, Errazuriz E, De Larichaudy J, Chanon S, Weiss-Gayet M, Hesse AM, Record M, Geloen A, Lefai E, Vidal H, Couté Y and Rome S
Proteomic Analysis of C2C12 Myoblast and Myotube Exosome-Like Vesicles: A New Paradigm for Myoblast-Myotube Cross Talk?
PLoS One, 2014, 9(1):e84153. PMID: 24392111.

Graindorge M, Giustini C, Kraut A, Moyet L, Curien G, Matringe M
Three different classes of aminotransferases evolved prephenate aminotransferase functionality in arogenate-competent microorganisms.
J Biol Chem, 2014, 289(6):3198-208. PMID: 24302739.

Nguyen-Lefebvre AT, Leprun G, Morin V, Viñuelas J, Couté Y, Madjar JJ, Gandrillon O, Gonin-Giraud S
V-erbA generates ribosomes devoid of RPL11 and regulates translational activity in avian erythroid progenitors.
Oncogene, 2014, 33(12): 1581-1589. PMID: 23563180.


Bougdour A, Durandau E, Brenier-Pinchart MP, Ortet P, Barakat M, Kieffer S, Curt-Varesano A, Curt-Bertini RL, Bastien O, Coute Y, Pelloux H and Hakimi MA
Host cell subversion by Toxoplasma GRA16, an exported dense granule protein that targets the host cell nucleus and alters gene expression.
Cell Host & Microbe, 2013, 13(4): 489-500. PMID: 23601110

Bounab Y, Hesse AM, Iannascoli B, Grieco L, Coute Y, Niarakis A, Roncagalli R, Lie E, Lam KP, Demangel C, Thieffry D, Garin J, Malissen B, Daeron M.
Proteomic analysis of the SLP76 interactome in resting and activated primary mast cells.
Mol Cell Proteomics, 2013, 1é(10):2874-89. PMID: 23820730

Braun L, Brenier-Pinchart MP, Yogavel M, Curt-Varesano A, Curt-Bertini RL, Hussain T, Kieffer-Jaquinod S, Coute Y, Pelloux H, Tardieux I, Sharma A, Belrhali H, Bougdour A, Hakimi MA.
A Toxoplasma dense granule protein, GRA24, modulates the early immune response to infection by promoting a direct and sustained host p38 MAPK activation.
J Exp Med, 2013, 210(10):2071-86. PMID: 24043761

Burger T, Destercke S.
How to randomly generate mass functions.
International Journal of Uncertainty, Fuzziness and Knowledge-Based Systems (IJUFKS), vol 21(5), pp. 645-673, 2013.

Casabona MG, Vandenbrouck Y, Attree I, Couté Y*.
Proteomic characterization of Pseudomonas aeruginosa PAO1 inner membrane.
Proteomics, 2013, 13(16) : 2419-2423. PMID: 23744604

Casabona MG, Silverman JM, Sall KM, Boyer F, Coute Y, Poirel J, Grunwald D, Mougous JD, Elsen S and Attree I
An ABC transporter and an outer membrane lipoprotein participate in posttranslational activation of type VI secretion in Pseudomonas aeruginosa.
Environmental Microbiology, 2013, 15: 471-486. PMID: 22765374

Chapel A, Kieffer-Jaquinod S, Sagne C, Verdon Q, Ivaldi C, Mellal M, Thirion J, Jadot M, Bruley C, Garin J, Gasnier B and Journet A
An extended proteome map of the lysosomal membrane reveals novel potential transporters.
Molecular & Cellular Proteomics, 2013, 12(6): 1572-1588. PMID: 23436907

Courty N, Burger T A kernel view on manifold sub-sampling based on Karcher variance optimization.
Geometric Sciences of Information (GSI 2013), LNCS 8085, pp. 751-758, Paris, France, July 2013.

Destercke S, Burger T
Toward an axiomatic definition of conflict between belief functions.
IEEE Transactions on Systems, Man, and Cybernetics, 2013, 43(2): 585-596. PMID: 22961307

Dell’aglio E, Giustini C, Salvi D, Brugiere S, Delpierre F, Moyet L, Baudet M, Seigneurin-Berny D, Matringe M, Ferro M, Rolland N and Curien G Complementary biochemical approaches applied to the identification of plastidial calmodulin-binding proteins.
Molecular BioSystems, 2013, 9(6): 1234-1248. PMID: 23549413

Deshiere A, Duchemin-Pelletier E, Spreux E, Ciais D, Combes F, Vandenbrouck Y, Coute Y, Mikaelian I, Giusiano S, Charpin C, Cochet C and Filhol O
Unbalanced expression of CK2 kinase subunits is sufficient to drive epithelial-to-mesenchymal transition by Snail1 induction.
Oncogene, 2013, 32(11): 1373-83. PMID: 22562247

Duan C, Adam V, Byrdin M, Ridard J, Kieffer-Jaquinod S, Morlot C, Arcizet D, Demachy I, Bourgeois D
Structural evidence for a two-regime photobleaching mechanism in a reversibly switchable fluorescent protein.
J Am Chem Soc. 2013, 135(42):15841. PMID: 24059326

Emadali A, Rousseaux S, Bruder-Costa J, Rome C, Duley S, Hamaidia S, Betton P, Debernardi A, Leroux D, Bernay B, Kieffer-Jaquinod S, Combes F, Ferri E, McKenna CE, Petosa C, Bruley C, Garin J, Ferro M, Gressin R, Callanan MB, Khochbin S.
Identification of a novel BET bromodomain inhibitor-sensitive, gene regulatory circuit that controls Rituximab response and tumour growth in aggressive lymphoid cancers.
EMBO Mol Med. 2013,5(8): 1180-1195. PMID: 23828858

Forouhar F, Arragain S, Atta M, Gambarelli S, Mouesca JM, Hussain M, Xiao R, Kieffer-Jaquinod S, Seetharaman J, Acton TB, Montelione GT, Mulliez E, Hunt JF, Fontecave M.
Two Fe-S clusters catalyze sulfur insertion by radical-SAM methylthiotransferases.
Nature Chemical Biology, 2013, 9(5): 333-338. PMID: 23542644

Govin J and Khochbin S. 
Histone variants and sensing of chromatin functional states.
Nucleus, 2013, 4(6):438-442. PMID : 24213375

Habif G, Grasset MF, Kieffer-Jaquinod S, Kuhn L, Mouchiroud G, Gobert-Gosse S
Phosphoproteome analyses reveal specific implications of Hcls1, p21-activated kinase 1 and Ezrin in proliferation of a myeloid progenitor cell line downstream of wild-type and ITD mutant Fms-like tyrosine kinase 3 receptors.
J Proteomics, 2013, 78: 231-44. PMID: 23017497

Hajj Chehade M, Loiseau L, Lombard M, Pecqueur L, Ismail A, Smadja M, Golinelli-Pimpaneau B, Mellot-Draznieks C, Hamelin O, Aussel L, Kieffer-Jaquinod S, Labessan N, Barras F, Fontecave M and Pierrel F
ubiI, a new gene in Escherichia coli Coenzyme Q biosynthesis, is involved in aerobic C5-hydroxylation.
Journal of Biological Chemistry, 2013, 288(27): 20085-20092. PMID: 23709220

Pichon F, Destercke S, Burger T
Selecting source behavior in information fusion on the basis of consistency and specificity.
The Twelfth European Conference on Symbolic and Quantitative Approaches to Reasoning with Uncertainty (ECSQARU 2013), LNAI 7958, pp. 473–484, Utrecht, The Netherlands, July 2013.

Philippe N, Legendre M, Doutre G, Couté Y, Poirot O, Lescot M, Arslan D, Seltzer V, Bertaux L, Bruley C, Garin J, Claverie JM and Abergel C.
Pandoraviruses: amoeba viruses with genomes up to 2.5 Mb reaching that of parasitic eukaryotes.
Science, 2013, 341(6143): 281-286. PMID: 23869018

Robert-Genthon M, Casabona MG, Neves D, Couté Y, Cicéron F, Elsen S, Dessen A, Attrée I
Unique features of a Pseudomonas aeruginosa α2-macroglobulin homolog.
MBio, 2013, 4(4): e00309-13. PMID: 23919994

Terman DS, Serier A, Dauwalder O, Badiou C, Dutour A, Thomas D, Brun V, Bienvenu J, Etienne J, Vandenesch F, Lina G. 
Staphylococcal enterotoxins of the enterotoxin gene cluster (egcSEs) induce nitrous oxide- and cytokine dependent tumor cell apoptosis in a broad panel of human tumor cells.
Front Cell Infect Microbiol. 2013; 3: 38. PMID: 23964349

Smith LM,  Kelleher NL & The Consortium for Top Down Proteomics
Proteoform: a single term describing protein complexity.
2013, Nature Methods 10, 186–187. PMID: 23443629

Van Lis R, Baffert C, Couté Y, Nitschke W, Atteia A
Chlamydomonas reinhardtii chloroplasts contain a homodimeric pyruvate:ferredoxin oxidoreductase that functions with FDX1.
Plant Physiol, 2013, 161(1): 57-71. PMID: 23154536

Zaccaria A, Bouamrani A, Selek L, El Atifi M, Hesse AM, Ratel D, Juhem A, Mathieu H, Couté Y, Bruley C, Garin J, Benabid AL, Chabardes S, Piallat B, Berger F
A micro silicon chip for in vivo cerebral imprint in monkey.
ACS Chem Neurosci, 2013, 4(3): 385-92. PMID: 23509975


Adrait A, Lebert D, Trauchessec M, Dupuis A, Louwagie M, Masselon C, Jaquinod M, Chevalier B, Vandenesch F, Garin J, Bruley C and Brun V*
Development of a protein standard absolute quantification (PSAQ™) assay for the quantification of Staphylococcus aureus enterotoxin A in serum.
Journal of Proteomics, 2012, 75(10): 3041-3049. PMID: 22155127

Bruley C*, Dupierris V, Salvi D, Rolland N and Ferro M
AT_CHLORO – A chloroplast database dedicated to sub-plastidial localization.
Frontiers in Plant Science, 2012, 3: 205. PMID: 22973284

Burger, S. Destercke.
Random generation of mass functions: A short howto.
The 2nd International Conference on Belief Functions (BELIEF 2012), Advances in Intelligent and Soft Computing, Volume 164/2012, pp. 145-152, Compiègne, May 2012.

Courty, T. Burger, P.-F. Marteau.
Geodesic analysis on the Gaussian RKHS hypersphere.
The European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases (ECML-PKDD 2012), P. Flach et al. (Eds.): ECML PKDD 2012, Part I, LNCS 7523, pp. 299–313, Bristol, UK, September 2012.

Destercke, T. Burger.
Revisiting the notion of conflicting belief functions.
The 2nd International Conference on Belief Functions (BELIEF 2012), Advances in Intelligent and Soft Computing, Volume 164/2012, pp. 153-160, Compiègne, May 2012.

Filhol O, Ciais D, Lajaunie C, Charbonnier P, Foveau N, Vert JP and Vandenbrouck Y*
DSIR: Assessing the design of highly potent siRNA by testing a set of cancer-relevant target genes.
PLoS One, 2012, 7(10): e48057. PMID: 23118925

Forestier A, Sarrazy F, Caillat S, Vandenbrouck Y, Sauvaigo S
Functional DNA repair signature of cancer cell lines exposed to a set of cytotoxic anticancer drugs using a multiplexed enzymatic repair assay on biochip.
PLoS One, 2012, 7(12):e51754. PMID: 23300565

Govin J, Gaucher J, Ferro M, Debernardi A, Garin J, Khochbin S and Rousseaux S
Proteomic strategy for the identification of critical actors in reorganization of the post-meiotic male genome.
Molecular Human Reproduction, 2012, 18(1): 1-13. PMID: 24043761

Greco A, Arata L, Soler E, Gaume X, Couté Y, Hacot S, Callé A, Monier K, Epstein AL, Sanchez JC, Bouvet P and Diaz JJ
Nucleolin interacts with US11 protein of herpes simplex virus 1 and is involved in its trafficking.
Journal of Virology, 2012, 86(3): 1449-1457. PMID: 22130536

Huang Y, Yoon SH, Heron SR, Masselon CD, Edgar JS, Tureček F, Goodlett DR
Surface acoustic wave nebulization produces ions with lower internal energy than electrospray ionization.
J Am Soc Mass Spectrom, 2012, 23(6):1062-70. PMID: 22476889

Huillet C, Adrait A, Lebert D, Picard G, Trauchessec M, Louwagie M, Dupuis A, Hittinger L, Ghaleh B, Le Corvoisier P, Jaquinod M, Garin J, Bruley C and Brun V*
Accurate quantification of cardiovascular biomarkers in serum using protein standard absolute quantification (PSAQ™) and selected reaction monitoring.
Molecular and Cellular Proteomics, 2012, 11(2): M111.008235. PMID: 22080464

Ivaldi C, Martin BR, Kieffer-Jaquinod S, Chapel A, Levade T, Garin J and Journet A
Proteomic analysis of S-acylated proteins in human B cells reveals palmitoylation of the immune regulators CD20 and CD23.
PLoS One, 2012, 7(5): e37187. PMID: 22615937

Jaquinod M*, Trauchessec M, Huillet C, Louwagie M, Lebert D, Picard G, Adrait A, Dupuis A, Garin J, Brun V and Bruley C
Mass spectrometry-based absolute protein quantification: PSAQ™ strategy makes use of “noncanonical” proteotypic peptides.
Proteomics, 2012, 12(8): 1217-1221. PMID: 22577023

Jézégou A, Llinares E, Anne C, Kieffer-Jaquinod S, O’Regan S, Aupetit J, Chabli A, Sagné C, Debacker C, Chadefaux-Vekemans B, Journet A, André B, Gasnier  B
Heptahelical protein PQLC2 is a lysosomal cationic amino acid exporter underlying the action of cysteamine in cystinosis therapy.
Proc Natl Acad Sci U S A, 2012, 109(50):E3434-43. PMID: 23169667

Journet A, Klein G, Brugiere S, Vandenbrouck Y, Chapel A, Kieffer S, Bruley C, Masselon C and Aubry L
Investigating the macropinocytic proteome of Dictyostelium amoebae by high-resolution mass spectrometry.
Proteomics, 2012, 12(2): 241-245. PMID: 22120990

Kurowska M, Goudin N, Nehme NT, Court M, Garin J, Fischer A, de Saint Basile G, Ménasché G
Terminal transport of lytic granules to the immune synapse is mediated by the kinesin-1/Slp3/Rab27a complex.
Blood, 2012, 119(17):3879-89. PMID: 22308290

Louwagie M, Kieffer-Jaquinod S, Dupierris V, Coute Y, Bruley C, Garin J, Dupuis A, Jaquinod M and Brun V*
Introducing AAA-MS, a rapid and sensitive method for amino acid analysis using isotope dilution and high-resolution mass spectrometry.
Journal of Proteome Research, 2012, 11(7): 3929-3936. PMID: 22681258

Lupo J, Conti A, Sueur C, Coly P-A, Couté Y, Hunziker W, Burmeister WP, Germi R, Manet E, Gruffat H, Morand P and Boyer V
Identification of new interacting partners of the shuttling protein ubinuclein (Ubn-1).
Experimental Cell Research, 2012, 318(5): 509-520. PMID: 22245583

Merle N, Féraud O, Gilquin B, Hubstenberger A, Kieffer-Jacquinot S, Assard N, Bennaceur-Griscelli A, Honnorat J and Baudier J
ATAD3B is a human embryonic stem cell specific mitochondrial protein, re-expressed in cancer cells, that functions as dominant negative for the ubiquitous ATAD3A.
Mitochondrion, 2012, 12(4): 441-448. PMID: 22664726

Mininno M, Brugiere S, Pautre V, Gilgen A, Ma S, Ferro M, Tardif M, Alban C and Ravanel S
Characterization of chloroplastic fructose 1,6-bisphosphate aldolases as lysine-methylated proteins in plants.
Journal of Biological Chemistry, 2012, 287(25): 21034-21044. PMID: 22547063

Ozeir M, Xie LX, Chehade MH, Tang JY, Chen JY, Kieffer-Jaquinod S, Fontecave M, Clarke CF and Pierrel F
In vivo accumulation of coenzyme Q biosynthetic intermediates and aminated analogs in the yeast Saccharomyces cerevisiae.
Biochimica et Biophysica Acta (BBA) – Bioenergetics, 2012, 1817, Supplement: S92

Paik YK, Omenn GS, Uhlen M, Hanash S, Marko-Varga G, Aebersold R, Bairoch A, Yamamoto T, Legrain P, Lee HJ, Na K, Jeong SK, He F, Binz PA, Nishimura T, Keown P, Baker MS, Yoo JS, Garin J, Archakov A, Bergeron J, Salekdeh GH, Hancock WS.
Standard guidelines for the chromosome-centric human proteome project.
J Proteome Res. 2012. 11(4):2005-13. PMID: 22443261

Picard G, Lebert D, Louwagie M, Adrait A, Huillet C, Vandenesch F, Bruley C, Garin J, Jaquinod M and Brun V*
PSAQ standards for accurate MS-based quantification of proteins: from the concept to biomedical applications.
Journal of Mass Spectrometry. 2012. 47(10): 1353-1363. PMID: 23019168

Schvartz D, Couté Y, Brunner Y, Wollheim CB and Sanchez JC
Modulation of neuronal pentraxin 1 expression in rat pancreatic ß-cells submitted to chronic glucotoxic stress.
Molecular and Cellular Proteomics, 2012, 11(8): 244-254. PMID: 22427704

Tarasova, T. Yu. Perlova, M. L. Pridatchenko, A. A. Goloborod’ko, L. I. Levitsky, V. V. Evreinov, V. Guryca, C. D. Masselon, d, A. V. Gorshkov, and M. V. Gorshkov
Inversion of Chromatographic Elution Orders of Peptides and Its Importance for Proteomics.
Journal of Analytical Chemistry, 2012, 67, 13: 1014–1025.

Tardif M, Atteia A, Specht M, Cogne G, Rolland N, Brugière S, Hippler M, Ferro M, Bruley C, Peltier G, Vallon O and Cournac L
PREDALGO, a new subcellular localization prediction tool dedicated to green algae.
Molecular Biology and Evolution, 2012, 29(12):3625-3639 PMID: 22826458

Tarrago L, Kieffer-Jaquinod S, Lamant T, Marcellin M, Garin J, Rouhier N and Rey P
Affinity chromatography: A valuable strategy to isolate substrates of methionine sulfoxide reductases?
Antioxidants & Redox Signaling, 2012, 16: 79-84. PMID: 21882992

Wade A, Thomas C, Kalmar B, Terenzio M, Garin J, Greensmith L and Schiavo G
Activated leukocyte cell adhesion molecule modulates neurotrophin signaling.
Journal of Neurochemistry, 2012, 121(4): 575-586. PMID: 22243278

Xie LX, Ozeir M, Tang JY, Chen JY, Jaquinod SK, Fontecave M, Clarke CF and Pierrel F
Over-expression of the Coq8 kinase in Saccharomyces cerevisiae coq null mutants allows for accumulation of diagnostic intermediates of the Coenzyme Q6 biosynthetic pathway.
Journal of Biological Chemistry, 2012, 287(28): 23571-23581. PMID: 22593570

Yoon SH, Huang Y, Edgar JS, Ting YS, Heron SR, Kao Y, Li Y, Masselon CD, Ernst RK, Goodlett DR
Surface acoustic wave nebulization facilitating lipid mass spectrometric analysis.
Anal Chem., 2012, 84(15):6530-7. PMID: 22742654


Agrawal GK, Bourguignon J, Rolland N, Ephritikhine G, Ferro M, Jaquinod M, Alexiou KG, Chardot T, Chakraborty N, Jolivet P, Doonan JH and Rakwal R
Plant organelle proteomics: Collaborating for optimal cell function.
Mass Spectrometry Reviews, 2011, 211(30): 772-853

Beltran S, Gourbal B, Boissier J, Duval D, Kieffer-Jaquinod S, Pierce RJ, Grunau C, Theron A and Mitta G
Vertebrate host protective immunity drives genetic diversity and antigenic polymorphism in Schistosoma mansoni.
Journal of Evolutionary Biology, 2011, 24(3): 554-572

Baklouti F, Morinière M, Haj-Khélil A, Fénéant-Thibault M, Gruffat H, Couté Y, Ninot A, Guitton C and Delaunay J
Homozygous deletion of EPB41 genuine AUG-containing exons results in mRNA splicing defects, NMD activation and protein 4.1R complete deficiency in hereditary elliptocytosis.
Blood Cells, Molecules, and Diseases, 2011, 47(3): 158-165

Bounaix Morand du Puch C, Barbier E, Kraut A, Couté Y, Fuchs J, Buhot A, Livache T, Sève M, Favier A, Douki T, Gasparutto D, Sauvaigo S and Breton J
TOX4 and its binding partners recognize DNA adducts generated by platinum anticancer drugs.
Archives of Biochemistry and Biophysics, 2011, 507(2): 296-303

Court M, Selevsek N, Matondo M, Allory Y, Garin J, Masselon CD and Domon B
Toward a standardized urine proteome analysis methodology.
Proteomics, 2011, 11(6): 1160-1171

Crozat E, Hindre T, Kuhn L, Garin J, Lenski RE and Schneider D
Altered regulation of the OmpF porin by Fis in Escherichia coli during an evolution experiment and between B and K12 strains.
Journal of Bacteriology, 2011, 193(2): 429-440

Duperthuy M, Schmitt P, Garzón E, Caro A, Rosa RD, Le Roux F, Lautrédou-Audouy N, Got P, Romestand B, de Lorgeril J, Kieffer-Jaquinod S, Bachère E and Destoumieux-Garzón D
Use of OmpU for attachment and invasion of Crassostrea gigas immune cells by the oyster pathogen Vibrio splendidus.
Proceedings of the National Academy of Sciences USA, 2011, 108: 2993-2998

Guillaumond F, Boyer B, Becquet D, Guillen S, Kuhn L, Garin J, Belghazi M, Bosler O, Franc JL and François-Bellan AM
Chromatin remodeling as a mechanism for circadian prolactin transcription: Rhythmic NONO and SFPQ recruitment to HLTF.
FASEB J, 2011, 25: 2740-2756

Joshi HJ, Hirsch-Hoffmann M, Baerenfaller K, Gruissem W, Baginsky S, Schmidt R, Schulze WX, Sun Q, van Wijk KJ, Egelhofer V, Wienkoop S, Weckwerth W, Bruley C, Rolland N, Toyoda T, Nakagami H, Jones AM, Briggs SP, Castleden I, Tanz SK, Millar AH and Heazlewood JL
MASCP Gator: An aggregation portal for the visualization of Arabidopsis proteomics data.
Plant Physiology, 2011, 155(1): 259-270

Lebert D, Dupuis A, Garin J, Bruley C and Brun V
Production and use of stable isotope-labeled proteins for absolute quantitative proteomics.
Methods in Molecular Biology, 2011, 753: 93-115

Nguyen HM, Baudet M, Cuiné S, Adriano JM, Barthe D, Billon E, Bruley C, Beisson F, Peltier G, Ferro M and Li-Beisson Y
Proteomic profiling of oil bodies isolated from the unicellular green microalga Chlamydomonas reinhardtii: With focus on proteins involved in lipid metabolism.
Proteomics, 2011, 11(21): 4266-4273

Nicolas E, Ramus C, Berthier S, Arlotto M, Bouamrani A, Lefebvre C, Morel F, Garin J, Ifrah N, Berger F, Cahn JY and Mossuz P
Expression of S100A8 in leukemic cells predicts poor survival in de novo AML patients.
Leukemia, 2011, 25: 57-65

Rolland D, Bouamrani A, Houlgatte R, Barbarat A, Ramus C, Arlotto M, Ballester B, Berger F, Felman P, Callet-Bauchu E, Baseggio L, Traverse-Glehen A, Brugière S, Garin J, Coiffier B, Berger F and Thieblemont C
Identification of proteomic signatures of mantle cell lymphoma, small lymphocytic lymphoma, and marginal zone lymphoma biopsies by surface enhanced laser desorption/ionization-time of flight mass spectrometry.
Leukemia & Lymphoma, 2011, 52: 648-658

Salvi D, Moyet L, Seigneurin-Berny D, Ferro M, Joyard J and Rolland N
Preparation of envelope membrane fractions from Arabidopsis chloroplasts for proteomic analysis and other studies.
Methods in Molecular Biology, 2011, 775: 189-206

Villiers F, Ducruix C, Hugouvieux V, Jarno N, Ezan E, Garin J, Junot C and Bourguignon J
Investigating the plant response to cadmium exposure by proteomic and metabolomic approaches.
Proteomics, 2011, 11(9): 1650-1663

Villiers F, Hugouvieux V, Leonhardt N, Vavasseur A, Junot C, Vandenbrouck Y and Bourguignon J
Exploring the plant response to cadmium exposure by transcriptomic, proteomic and metabolomic approaches. Potentiality of high-throughput methods, promises of integrated biology In Metal Toxicity in Plants: Perception, Signaling and Remediation, édité par Gupta DK and Sandalio LM, Springer, 2011, pp. 119-142

Wang J, Emadali A, Le Bescont A, Callanan M, Rousseaux S and Khochbin S
Induced malignant genome reprogramming in somatic cells by testis-specific factors.
Biochimica et Biophysica Acta (BBA) – Gene Regulatory Mechanisms, 2011, 1809(4-6): 221-225


Bouamrani A, Ramus C, Gay E, Pelletier L, Cubizolles M, Brugiere S, Wion D, Berger F and Issartel JP
Increased phosphorylation of vimentin in noninfiltrative meningiomas.
PLoS One, 2010, 5(2): e9238

Braun L, Cannella D, Ortet P, Barakat M, Sautel CF, Kieffer S, Garin J, Bastien O, Voinnet O and Hakimi MA
A complex small RNA repertoire is generated by a plant/fungal-like machinery and effected by a metazoan-like Argonaute in the single-cell human parasite Toxoplasma gondii.
PLoS Pathogens, 2010, 6(5): e1000920

Dos Santos A, Court M, Thiers V, Sar S, Guettier C, Samuel D, Brechot C, Garin J, Demaugre F and Masselon CD
Identification of cellular targets in human intrahepatic cholangiocarcinoma using laser microdissection and AMT-tag proteomics.
Molecular and Cellular Proteomics, 2010, 9(9): 1991-2004

Ferro M, Brugiere S, Salvi D, Seigneurin-Berny D, Court M, Moyet L, Ramus C, Miras S, Mellal M, Le Gall S, Kieffer-Jaquinod S, Bruley C, Garin J, Joyard J, Masselon C and Rolland N
AT_CHLORO: A comprehensive chloroplast proteome database with subplastidiallocalization and curated information on envelope proteins.
Molecular and Cellular Proteomics, 2010, 9(1): 1063-1084

Gilquin B, Cannon BR, Hubstenberger A, Moulouel B, Falk E, Merle N, Assard N, Kieffer S, Rousseau D, Wilder PT, Weber DJ and Baudier J
The calcium-dependent interaction between S100B and the mitochondrial AAA-ATPase ATAD3A and the role of this complex in the cytoplasmic processing of ATAD3A.
Molecular and Cellular Biology, 2010, 30(11): 2724-2736

Graindorge M, Giustini C, Jacomin AC, Kraut A, Curien G and Matringe M
Identification of a plant gene encoding glutamate/aspartate-prephenate aminotransferase: The last homeless enzyme of aromatic amino acids biosynthesis.
Febs Letters, 2010, 584(20): 4357-4360

Guillaumot P, Luquain C, Malek M, Huber AL, Brugière S, Garin J, Grunwald D, Régnier D, Pétrilli V, Lefai E and Manié SN
Pdro, a protein associated with late endosomes and lysosomes and implicated in cellular cholesterol homeostasis.
PLoS One, 2010, 5(6): 1-9

Hacot S, Coute Y, Belin S, Albaret MA, Mertani HC, Sanchez JC, Rosa-Calatrava M and Diaz JJ
Isolation of nucleoli.
Current Protocols in Cell Biology, 2010, (SUPPL. 47): 3.36.31-33.36.10

Jacquot JF, Le Bail JL, Bardet M and Tabony J
Exposure of biological preparations to radiofrequency electromagnetic fields under low gravity.
Review of Scientific Instruments, 2010, 81(11): 115103

Joyard J, Ferro M, Masselon C, Seigneurin-Berny D, Salvi D, Garin J and Rolland N
Chloroplast proteomics highlights the subcellular compartmentation of lipid metabolism.
Progress in Lipid Research, 2010, 49(2): 128-158

Legrès L, Varna M, Bouhidel F, Leboeuf C, Ratajczak P, Martin N, Plassa L-F, Soliman H, Turpin E, Lehmann-Che J, de Thé H, Court M, Masselon C, Garin J, Janin A and Bertheau P
Principe et applications de la microdissection laser en histopathologie.
Revue Francophone des Laboratoires, 2010, 2010(418): 57-66

Mischak H, Allmaier G, Apweiler R, Attwood T, Baumann M, Benigni A, Bennett SE, Bischoff R, Bongcam-Rudloff E, Capasso G, Coon JJ, D’Haese P, Dominiczak AF, Dakna M, Dihazi H, Ehrich JH, Fernandez-Llama P, Fliser D, Frokiaer J, Garin J, Girolami M, Hancock WS, Haubitz M, Hochstrasser D, Holman RR, Ioannidis JP, Jankowski J, Julian BA, Klein JB, Kolch W, Luider T, Massy Z, Mattes WB, Molina F, Monsarrat B, Novak J, Peter K, Rossing P, Sanchez-Carbayo M, Schanstra JP, Semmes OJ, Spasovski G, Theodorescu D, Thongboonkerd V, Vanholder R, Veenstra TD, Weissinger E, Yamamoto T and Vlahou A
Recommendations for biomarker identification and qualification in clinical proteomics.
Science Transational Medicine, 2010, 2(46): 46ps42

Mischak H, Kolch W, Aivaliotis M, Bouyssie D, Court M, Dihazi H, Dihazi GH, Franke J, Garin J, de Peredo AG, Iphofer A, Jansch 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, Zurbig P, Schanstra JP and Vlahou A
Comprehensive human urine standards for comparability and standardization in clinical proteome analysis.
Proteomics Clinical Applications, 2010, 4(4): 464-478

Mone Y, Gourbal B, Duval D, Du Pasquier L, Kieffer-Jaquinod S and Mitta G
A large repertoire of parasite epitopes matched by a large repertoire of host immune receptors in an invertebrate host/parasite model.
PLoS Neglected Tropical Diseases, 2010, 4(9): e813

Nicolas A, Alazard-Dany N, Biollay C, Arata L, Jolinon N, Kuhn L, Ferro M, Weller SK, Epstein AL, Salvetti A and Greco A
Identification of rep-associated factors in Hsv-1-induced aav-2 replication compartments.
Journal of Virology, 2010, 84(17): 8871-8887

Pierrel F, Hamelin O, Douki T, Kieffer-Jaquinod S, Mühlenhoff U, Ozeir M, Lill R and Fontecave M
Involvement of mitochondrial ferredoxin and para-aminobenzoic acid in yeast coenzyme Q biosynthesis.
Chemistry & Biology, 2010, 17(5): 449-459

Tasset C, Bernoux M, Jauneau A, Pouzet C, Briere C, Kieffer-Jacquinod S, Rivas S, Marco Y and Deslandes L
Autoacetylation of the Ralstonia solanacearum effector PopP2 targets a lysine residue essential for RRS1-R-mediated immunity in Arabidopsis.
PLoS Pathogens, 2010, 6(11): e1001202


Andreoletti P, Mouesca J-M, Gouet P, Jaquinod M, Capeillère-Blandin C and Jouve HM
Verdoheme formation in Proteus mirabilis catalase.
Biochimica et Biophysica Acta (BBA) – General Subjects, 2009, 1790(8): 741-753

Atteia A, Adrait A, Brugiere S, Tardif M, van Lis R, Deusch O, Dagan T, Kuhn L, Gontero B, Martin W, Garin J, Joyard J and Rolland N
A proteomic survey of Chlamydomonas reinhardtii mitochondria sheds new light on the metabolic plasticity of the organelle and on the nature of the {alpha}-proteobacterial mitochondrial ancestor.
Molecular Biology and Evolution, 2009, 26(7): 1533-1548

Bernay B, Gaillard MC, Guryca V, Emadali A, Kuhn L, Bertrand A, Detraz I, Carcenac C, Savasta M, Brouillet E, Garin J and Elalouf JM
Discovering new bioactive neuropeptides in the striatum secretome using in vivo microdialysis and versatile proteomics.
Molecular and Cellular Proteomics, 2009, 8(5): 946-958

Braun L, Cannella D, Pinheiro AM, Kieffer S, Belrhali H, Garin J and Hakimi MA
The small ubiquitin-like modifier (SUMO)-conjugating system of Toxoplasma gondii.
International Journal for Parasitology, 2009, 39(1): 81-90

Brun V, Masselon C, Garin J and Dupuis A
Isotope dilution strategies for absolute quantitative proteomics.
Journal of Proteomics, 2009, 72(5): 740-749

Chumpitazi BF, Bouillet L, Drouet MT, Kuhn L, Garin J, Zarski JP and Drouet C
Biological autoimmunity screening in hepatitis C patients by anti-HepG2 lysate and anti-heat shock protein 70.1 autoantibodies.
European Journal of Clinical Microbiology and Infectious Diseases, 2009, 28(2): 137-146

Dupierris V, Masselon C, Court M, Kieffer-Jaquinod S and Bruley C
A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa.
Bioinformatics, 2009, 25(15): 1980-1981

Emadali A and Gallagher-Gambarelli M
Quantitative proteomics by SILAC: Practicalities and perspectives for an evolving approach.
Medecine Sciences (Paris), 2009, 25(10): 835-842

Garin J and Jensen G
Current Opinion in Microbiology, 2009, 12(3): 282-284

Hennekinne JA, Brun V, De Buyser ML, Dupuis A, Ostyn A and Dragacci S
Innovative application of mass spectrometry for the characterization of staphylococcal enterotoxins involved in food poisoning outbreaks.
Applied and Environmental Microbiology, 2009, 75(3): 882-884

Joyard J, Ferro M, Masselon C, Seigneurin-Berny D, Salvi D, Garin J and Rolland N
Chloroplast proteomics and the compartmentation of plastidial isoprenoid biosynthetic pathways.
Molecular Plant, 2009, 2: 1154-1180

Kraut A, Marcellin M, Adrait A, Kieffer-Jaquinod S, Kuhn L, Louwagie M, Lebert D, Masselon CD, Dupuis A, Bruley C, Jaquinod M, Garin J and Gallagher-Gambarelli M
Peptide storage: Are you getting the best return on your investment? Defining optimal storage conditions for proteomics samples.
Journal of Proteome Research, 2009, 8(7): 3778-3785

Lehmann S, Roche S, Allory Y, Barthelaix A, Beaudeux JL, Berger F, Betsou F, Borg J, Dupuy A, Garin J, Quillard M, Lizard G, Peoc’H K, Riviere M and Ducoroy P
Preanalytical guidelines for clinical proteomics investigation of biological fluids.
Annales de Biologie Clinique, 2009, 67(6): 629-639

Li L, Sun CJ, Freeby S, Yee D, Kieffer-Jaquinod S, Guerrier L, Boschetti E and Lomas L
Protein sample treatment with peptide ligand library: Coverage and consistency.
Journal of Proteomics and Bioinformatics, 2009, 2.12: 485-494

Nicolau E, Kuhn L, Marchal R and Jouanneau Y
Proteomic investigation of enzymes involved in 2-ethylhexyl nitrate biodegradation in Mycobacterium austroafricanum IFP 2173.
Research in Microbiology, 2009, 160(10): 838-847

Polge C, Jaquinod M, Holzer F, Bourguignon J, Walling L and Brouquisse R
Evidence for the existence in Arabidopsis thaliana of the proteasome proteolytic pathway: Activation in response to cadmium.
Journal of Biological Chemistry, 2009, 284(51): 35412-35424

Rolland N, Atteia A, Decottignies P, Garin J, Hippler M, Kreimer G, Lemaire SD, Mittag M and Wagner V
Chlamydomonas proteomics.
Current Opinion in Microbiology, 2009, 12(3): 285-291

Rolland N, Ferro M, Seigneurin-Berny D, Garin J, Block MA and Joyard J
The Chloroplast envelope proteome and lipidome. In The Chloroplast – Interactions with the Environment (Anna-Stina Sandelius and Henrik Aronsson, eds.), Plant cell monograph series (David G Robinson, series editor). Springer Verlag, 2009, Vol.13 pp. 41-88

Sautel CF, Ortet P, Saksouk N, Kieffer S, Garin J, Bastien O and Hakimi MA
The histone methylase KMTox interacts with the redox-sensor peroxiredoxin-1 and targets genes involved in Toxoplasma gondii antioxidant defences.
Molecular Microbiology, 2009, 71(1): 212-226

Tarasova IA, Guryca V, Pridatchenko ML, Gorshkov AV, Kieffer-Jaquinod S, Evreinov VV, Masselon CD and Gorshkov MV
Standardization of retention time data for AMT tag proteomics database generation.
Journal of Chromatography B, 2009, 877(4): 433-440

Thomas D, Dauwalder O, Brun V, Badiou C, Ferry T, Etienne J, Vandenesch F and Lina G
Staphylococcus aureus superantigens elicit redundant and extensive human Vß patterns.
Infection Immunity, 2009, 77(5): 2043-2050

Trocme C, Marotte H, Baillet A, Pallot-Prades B, Garin J, Grange L, Miossec P, Tebib J, Berger F, Nissen MJ, Juvin R, Morel F and Gaudin P
Apolipoprotein A-I and platelet factor 4 are biomarkers for Infliximab response in rheumatoid arthritis.
Annals of the Rheumatic Diseases, 2009, 68(8): 1328-1333


Bennett N, Letourneur F, Ragno M and Louwagie M
Sorting of the v-SNARE VAMP7 in Dictyostelium discoideum: A role for more than one Adaptor Protein (AP) complex.
Experimental Cell Research, 2008, 314(15): 2822-2833

Bourguignon J and Jaquinod M
An overview on Arabidopsis proteomics. In: Plant Proteomics: Technologies, strategies and applications. 2008, pp 143-164. Agrawal GK & Rakwal R (Eds), Wiley and Sons, NY

Braun L, Travier L, Kieffer S, Musset K, Garin J, Mercier C and Cesbron-Delauw MF
Purification of Toxoplasma dense granule proteins reveals that they are in complexes throughout the secretory pathway.
Molecular and Biochemical Parasitology, 2008, 157(1): 13-21

Dupuis A, Hennekinne JA, Garin J and Brun V
Protein Standard Absolute Quantification (PSAQ) for improved investigation of staphylococcal food poisoning outbreaks.
Proteomics, 2008, 8(22): 4633-4636

Ferro M, Tardif M, Reguer E, Cahuzac R, Bruley C, Vermat T, Nugues E, Vigouroux M, Vandenbrouck Y, Garin J and Viari A
PepLine: A software pipeline for high-throughput direct mapping of tandem mass spectrometry data on genomic sequences.
Journal of Proteome Research, 2008, 7(5): 1873-1883

Ghannam A, Hammache D, Matias C, Louwagie M, Garin J and Gerlier D
High-density rafts preferentially host the complement activator measles virus F glycoprotein but not the regulators of complement activation.
Molecular Immunology, 2008, 45(11): 3036-3044

Guryca V, Kieffer-Jaquinod S, Garin J and Masselon CD
Prospects for monolithic nano-LC columns in shotgun proteomics.
Analytical and Bioanalytical Chemistry, 2008, 392(7-8): 1291-1297

Kieffer-Jaquinod S, Chapel A, Garin J and Journet A
Affinity purification of soluble lysosomal proteins for mass spectrometric identification.
Methods in Molecular Biology, 2008, 432: 243-258

Lafourcade C, Sobo K, Kieffer-Jaquinod S, Garin J and van der Goot FG
Regulation of the V-ATPase along the endocytic pathway occurs through reversible subunit association and membrane localization.
PLoS ONE, 2008, 3(7): e2758

Mahul-Mellier AL, Strappazzon F, Petiot A, Chatellard-Causse C, Torch S, Blot B, Freeman K, Kuhn L, Garin J, Verna JM, Fraboulet S and Sadoul R
Alix and ALG-2 are involved in TNF-R1 induced cell death.
Journal of Biological Chemistry, 2008, 283(50): 34954-34965

Masselon CD, Kieffer-Jaquinod S, Brugière S, Dupierris V and Garin J
Influence of mass resolution on species matching in accurate mass and retention time (AMT) tag proteomics experiments.
Rapid Communication in Mass Spectrometry, 2008, 22(7): 986-992

Menasche G, Menager MM, Lefebvre JM, Deutsch E, Athman R, Lambert N, Mahlaoui N, Court M, Garin J, Fischer A and de Saint Basile G
A newly identified isoform of Slp2a associates with Rab27a in cytotoxic T cells and participates to cytotoxic granule secretion.
Blood, 2008, 112(13): 5052-5062

Salvi D, Rolland N, Joyard J and Ferro M
Purification and proteomic analysis of chloroplasts and their sub-organellar compartments.
Methods in Molecular Biology, 2008, 432: 19-36

Salvi D, Rolland N, Joyard J and Ferro M
Assessment of organelle purity using antibodies and specific assays: The example of the chloroplast envelope.
Methods in Molecular Biology, 2008, 432: 345-356

Wicker-Planquart C, Foucher AE, Louwagie M, Britton RA and Jault JM
Interactions of an essential Bacillus subtilis GTPase, YsxC, with ribosomes.
Journal of Bacteriology, 2008, 190(2): 681-690


Brun V, Dupuis A, Adrait A, Marcellin M, Thomas D, Court M, Vandenesch F and Garin J
Isotope-labeled protein standards: Toward absolute quantitative proteomics.
Molecular and Cellular Proteomics, 2007, 6(12): 2139-2149

Govin J, Escoffier E, Rousseaux S, Kuhn L, Ferro M, Thevenon J, Catena R, Davidson I, Garin J, Khochbin S and Caron C
Pericentric heterochromatin reprogramming by new histone variants during mouse spermiogenesis.
Journal of Cell Biology, 2007, 176(3): 283-294

Jaquinod M, Villiers F, Kieffer-Jaquinod S, Hugouvieux V, Bruley C, Garin J and Bourguignon J
A proteomics dissection of Arabidopsis thaliana vacuoles isolated from cell culture.
Molecular and Cellular Proteomics, 2007, 6(3): 394-412

Jaquinod M, Villiers F, Kieffer-Jaquinod S, Hugouvieux V, Bruley C, Garin J and Bourguignon J
A proteomics approach highlights a myriad of transporters in the Arabidopsis thaliana vacuolar membrane.
Plant Signaling & Behaviour, 2007, 2(5): 412-414

Jensen AG, Chemali M, Chapel A, Kieffer-Jaquinod S, Jadot M, Garin J and Journet A
Biochemical characterization and lysosomal localization of the mannose-6-phosphate protein p76 (hypothetical protein LOC196463).
Biochemical Journal, 2007, 402(3): 449-458

Lanquar V, Kuhn L, Lelievre F, Khafif M, Espagne C, Bruley C, Barbier-Brygoo H, Garin J and Thomine S
15N-Metabolic labeling for comparative plasma membrane proteomics in Arabidopsis cells.
Proteomics, 2007, 7(5):750-754

Lelong C, Aguiluz K, Luche S, Kuhn L, Garin J, Rabilloud T and Geiselmann J
The Crl-RpoS regulon of Escherichia coli.
Molecular and Cellular Proteomics, 2007, 6(4): 648-659

Lelong C, Rolland M, Louwagie M, Garin J and Geiselmann J
Mutual regulation of Crl and Fur in Escherichia coli W3110.
Molecular and Cellular Proteomics, 2007, 6(4): 660-668

Marmagne A, Ferro M, Meinnel T, Bruley C, Kuhn L, Garin J, Barbier-Brygoo H and Ephritikhine G
A high content in lipid-modified peripheral proteins and integral receptor kinases features the Arabidopsis plasma membrane proteome.
Molecular and Cellular Proteomics, 2007, 6(11): 1980-1996

Martelli A, Salin B, Dycke C, Louwagie M, Andrieu JP, Richaud P and Moulis JM
Folding and turnover of human iron regulatory protein 1 depend on its subcellular localization.
Febs Journal, 2007, 274(4): 1083-1092

Mossuz P, Bouamrani A, Brugière S, Arlotto M, Hermouet S, Lippert E, Laporte F, Girodon F, Dobo I, Praloran V, Garin J, Cahn JY and Berger F
Apolipoprotein A1: A new serum marker correlated to JAK2 V617F proportion at diagnosis in patients with polycythemia vera.
Proteomics. Clinical Applications, 2007, 1(12): 1605-1612

Paclet MH, Berthier S, Kuhn L, Garin J and Morel F
Regulation of phagocyte NADPH oxidase activity: Identification of two cytochrome b558 activation states.
FASEB Journal, 2007, 21(4): 1244-1255

Platel JC, Dupuis A, Boisseau S, Villaz M, Albrieux M and Brocard J
Synchrony of spontaneous calcium activity in mouse neocortex before synaptogenesis.
European Journal of Neuroscience, 2007, 25(4): 920-928

Sautel CF, Cannella D, Bastien O, Kieffer S, Aldebert D, Garin J, Tardieux I, Belrhali H and Hakimi MA
SET8-mediated methylations of histone H4 lysine 20 mark silent heterochromatic domains in apicomplexan genomes.
Molecular and Cellular Biology, 2007, 27(16): 5711-5724

Tolleter D, Jaquinod M, Mangavel C, Passirani C, Saulnier P, Manon S, Teyssier E, Payet N, Avelange-Macherel MH and Macherel D
Structure and function of a mitochondrial late embryogenesis abundant protein are revealed by desiccation.
Plant Cell, 2007, 19(5): 1580-1589


Albrieux M, Platel JC, Dupuis A, Brocard J, Savasta M and Villaz M
Neuronal activity before synaptogenesis: Na+ channels, Ca2+ signalling and glutamatergic secretion or how to play the part when some famous actors are missing in the scene?
Medecine Sciences (Paris), 22(4): 359-361

Atteia A, van Lis R, Gelius-Dietrich G, Adrait A, Garin J, Joyard J, Rolland N and Martin W
Pyruvate formate-lyase and a novel route of eukaryotic ATP-synthesis in Chlamydomonas mitochondria.
Journal of Biological Chemistry, 281(15): 9909-9918

Boonen M, Hamer I, Boussac M, Delsaute AF, Flamion B, Garin J and Jadot M
Intracellular localization of p40, a protein identified in a preparation of lysosomal membranes.
Biochemical Journal, 395(1): 39-47

Brosson D, Kuhn L, Delbac F, Garin J, Vivares CP and Texier C
Proteomic analysis of the eukaryotic parasite Encephalitozoon cuniculi (microsporidia): A reference map for proteins expressed in late sporogonial stages.
Proteomics, 6(12): 3625-3635

Burchak ON, Jaquinod M, Cottin C, Mugherli L, Iwai K, Chatelain F and Balakirev MY
Chemoenzymatic ubiquitination of artificial substrates.
Chembiochem, 7(11): 1667-1669

Chaput N, Flament C, Viaud S, Taieb J, Roux S, Spatz A, Andre F, LePecq JB, Boussac M, Garin J, Amigorena S, Thery C and Zitvogel L
Dendritic cell derived-exosomes: Biology and clinical implementations.
Journal of Leukocyte Biology, 80(3): 471-478

Decca MB, Bosc C, Luche S, Brugiere S, Job D, Rabilloud T, Garin J and Hallak ME
Protein arginylation in rat brain cytosol: A proteomic analysis.
Neurochemical Research, 31(3): 401-409

Faure J, Lachenal G, Court M, Hirrlinger J, Chatellard-Causse C, Blot B, Grange J, Schoehn G, Goldberg Y, Boyer V, Kirchhoff F, Raposo G, Garin J and Sadoul R
Exosomes are released by cultured cortical neurones.
Molecular and Cellular Neuroscience, 31(4): 642-648

Govin J, Caron C, Escoffier E, Ferro M, Kuhn L, Rousseaux S, Eddy EM, Garin J and Khochbin S
Post-meiotic shifts in HSPA2/HSP70.2 chaperone activity during mouse spermatogenesis.
Journal of Biological Chemistry, 281(49): 37888-37892

Hanano A, Burcklen M, Flenet M, Ivancich A, Louwagie M, Garin J and Blee E
Plant seed peroxygenase is an original heme-oxygenase with an EF-hand calcium binding motif.
Journal of Biological Chemistry, 281(44): 33140-33151

Le Lay P, Isaure MP, Sarry JE, Kuhn L, Fayard B, Le Bail JL, Bastien O, Garin J, Roby C and Bourguignon J
Metabolomic, proteomic and biophysical analyses of Arabidopsis thaliana cells exposed to a caesium stress. Influence of potassium supply.
Biochimie, 88: 1533-1547

Levine A, Vannier F, Absalon C, Kuhn L, Jackson P, Scrivener E, Labas V, Vinh J, Courtney P, Garin J and Seror S J
Analysis of the dynamic Bacillus subtilis Ser/Thr/Tyr phosphoproteome implicated in a wide variety of cellular processes.
Proteomics, 6(7): 2157-2173

Oficjalska-Pham D, Harismendy O, Smagowicz WJ, Gonzalez de Peredo A, Boguta M, Sentenac A and Lefebvre O
General repression of RNA polymerase III transcription is triggered by protein phosphatase type 2A-mediated dephosphorylation of Maf1.
Molecular Cell, 22(5): 623

Pelletier L, Guillaumot P, Frêche B, Luquain C, Christiansen D, Brugiere S, Garin J and Manié S
Gamma-secretase-dependent proteolysis of CD44 promotes neoplastic transformation of rat fibroblastic cells.
Cancer Research, 66(7): 3681-3687

Pelosi L, Kuhn L, Guetta D, Garin J, Geiselmann J, Lenski R and Schneider D
Parallel changes in global protein profiles during long-term evolution in Escherichia coli.
Genetics, 173(4): 1851-1869

Peuvel-Fanget I, Polonais V, Brosson D, Texier C, Kuhn L, Peyret P, Vivares C and Delbac F
EnP1 and EnP2, two proteins associated with the Encephalitozoon cuniculi endospore, the chitin-rich inner layer of the microsporidian spore wall.
International Journal of Parasitology, 36(3): 309-318

Ramus C, de Peredo AG, Dahout C, Gallagher M and Garin J
An optimized strategy for ICAT quantification of membrane proteins.
Molecular and Cellular Proteomics, 5(1): 68-78

Rolland N, Ferro M, Ephritikhine G, Marmagne A, Ramus C, Brugière S, Salvi D, Seigneurin-Berny D, Bourguignon J, Barbier-Brygoo H, Joyard J and Garin J
A versatile method for deciphering plant membrane proteomes.
Journal of Experimental Botany, 57: 1579-1589

Sarry JE, Kuhn L, Ducruix C, Lafaye A, Junot C, Hugouvieux V, Jourdain A, Bastien O, Fievet J, Vailhen D, Amekraz B, Moulin C, Ezan E, Garin J and Bourguignon J
The early responses of Arabidopsis thaliana cells to cadmium exposure explored by protein and metabolite profiling analyses.
Proteomics, 6(7): 2180-2198

Sarry JE, Kuhn L, Le Lay P, Garin J and Bourguignon J
Dynamics of Arabidopsis thaliana soluble proteome in response to different nutrient culture conditions.
Electrophoresis, 27(2): 495-507

Shen DK, Filopon D, Kuhn L, Polack B and Toussaint B
PsrA is a positive transcriptional regulator of the type III secretion system in Pseudomonas aeruginosa.
Infection Immunity, 74(2): 1121-1129


Brosson D, Kuhn L, Prensier G, Vivares CP and Texier C
The putative chitin deacetylase of Encephalitozoon cuniculi: A surface protein implicated in microsporidian spore-wall formation.
FEMS Microbiol Lett., 247(1): 81-90

Dahout-Gonzalez C, Ramus C, Dassa EP, Dianoux AC and Brandolin G 
Conformation-dependent swinging of the matrix loop m2 of the mitochondrial Saccharomyces cerevisiae ADP/ATP carrier.
Biochemistry, 44(49): 16310-16320

Gache V, Louwagie M, Garin J, Caudron N, Lafanechère L and Valiron O
Identification of proteins binding the native tubulin dimer.
Biochem. Biophys. Res. Commun, 327(1): 35-42

Michaille, JJ, Tili E, Calin GA, Garin J, Louwagie M and Croce CM
Cloning and characterization of cDNAs expressed during chick development and encoding different isoforms of a putative zic finger transcriptional regulator.
Biochimie, 87(11): 939-949

Moscatelli A, Scali M, Prescianotto-Baschong C, Ferro M, Garin J, Vignani R, Ciampolini F and Cresti M
A methionine synthase homolog is associated with secretory vesicles in tobacco pollen tubes.
Planta, 221(6): 776-89

Pastor A, Chabert J, Louwagie M, Garin J and Attree I
PscF is a major component of the Pseudomonas aeruginosa type III secretion needle.
FEMS Microbiology Letters, 253(1): 95-101

Rey P, Cuiné S, Eymery F, Garin J, Court M, Jacquot JP, Rouhier N and Broin M
Analysis of the proteins targeted by CDSP32, a plastidic thioredoxin participating in oxidative stress responses.
Plant J., 41(1): 31-42

Rumeau D, Becuwe-Linka N, Louwagie M, Garin J and Peltier G
New subunits NDH-M, -N, and –O, encoded by nuclear genes, are essential for plastid Ndh complex functioning in higher plants.
Plant Cell, 17(1): 219-232

Saksouk N, Bhatti M, Kieffer S, Smith A, Musset K, Garin J, Sullivan W , Cesbron-Delauw MF and Hakimi M
Histone modifying complexes regulate gene expression pertinent to the differentiation of protozoan parasite Toxoplasma gondii.
Molecular and Cellular Biology, 25(23): 10301-10314

Sarrut N, Bouffet S, Mittler F, Constantin O, Combette P, Sudor J, Ricoul F, Vinet F, Garin J and Vauchier C
Enzymatic digestion and liquid chromatography in micro-pillar reactors. Hydrodynamic versus electroosmotic flow.
Proceeding of SPIE, 5718: 99-109

Vassilopoulos S, Thevenon D, Smida Rezgui S, Brocard J, Chapel A, Lacampagne A, Lunardi J, Dewaard M and Marty I
Triadins are not triad specific proteins: Two new skeletal muscle triadins possibly involved in the architecture of sarcoplasmic reticulum.
Journal of Biological Chemistry, 280(31): 28601-28609

Witkowska D, Mieszala M, Gamian A, Staniszewska M, Czarny A, Przondo-Mordarska A, Jaquinod M and Forest E
Major structural proteins of type 1 and type 3 Klebsiella fimbriae are effective protein carriers and immunogens in conjugates as revealed from their immunochemical characterization.
FEMS Immunology and Medical Microbiology, 45(2): 221-230


Benaud C, Gentil BJ, Assard N, Court M, Garin J, Delphin C and Baudier J
AHNAK interaction with the annexin 2/S100A10 complex regulates cell membrane cytoarchitecture.
J. Cell. Bio.l, 164(1): 133-44

Bourges I, Ramus C, Mousson de Camaret B, Beugnot R, Remacle C, Cardol P, Hofhaus G and Issartel JP
Structural organization of mitochondrial human complex I: Role of the ND4 and ND5 mitochondria-encoded subunits and interaction with prohibitin.
Biochem J., 383(Pt. 3): 491-9

Brugiere S, Kowalski S, Ferro M, Seigneurin-Berny D, Miras S, Salvi D, Ravanel S, d’Herin P, Garin J, Bourguignon J, Joyard J and Rolland N
The hydrophobic proteome of mitochondrial membranes from Arabidopsis cell suspensions.
Phytochemistry, 65(12): 1693-707

Demaneche S, Meyer C, Micoud J, Louwagie M, Willison JC and Jouanneau Y
Identification and functional analysis of two aromatic-ring-hydroxylating dioxygenases from a sphingomonas strain that degrades various polycyclic aromatic hydrocarbons.
Appl. Environ. Microbiol., 70(11): 6714-25

Ephritikhine G, Ferro M and Rolland N
Plant membrane proteomics.
Plant Physiol. Biochem., 42(12): 943-62

Journet A and Ferro M
The potentials of MS-based subproteomic approaches in medical science: The case of lysosomes and breast cancer.
Mass. Spectrom. Rev., 23(6): 393-442

Lemaitre G, Lamartine J, Pitaval A, Vaigot P, Garin J, Bouet S, Petat C, Soularue P, Gidrol X, Martin MT and Waksman G
Expression profiling of genes and proteins in HaCaT keratinocytes: Proliferating versus differentiated state.
J. Cell. Biochem., 93(5): 1048-62

Marmagne A, Rouet MA, Ferro M, Rolland N, Alcon C, Joyard J, Garin J, Barbier-Brygoo H and Ephritikhine G
Identification of new intrinsic proteins in Arabidopsis plasma membrane proteome.
Mol. Cell Proteomics, 3(7): 675-91

Van Der Rest B, Rolland N, Boisson AM, Ferro M, Bligny R and Douce R
Identification and characterization of plant glycerophosphodiester phosphodiesterase.
Biochem. J., 379(Pt 3): 601-7


Berthier S, Paclet MH, Lerouge S, Roux F, Vergnaud S, Coleman AW and Morel F
Changing the conformation state of cytochrome b558 initiates NADPH oxidase activation: MRP8/MRP14 regulation.
J. Biol. Chem, 278(28): 25499-508

Ferro M, Salvi D, Brugière S, Miras D, Kowalski S, Louwagie M, Garin J, Joyard J and Rolland N
Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana.
Mol. Cell. Proteomics, 2(5): 325-45

Krivobok S, Kuony S, Meyer C, Louwagie M, Willison JC and Jouanneau Y
Identification of pyrene-induced proteins in Mycobacterium sp. strain 6PY1: Evidence for two ring-hydroxylating dioxygenases.
J. Bacteriol., 185(13): 3828-41

Lemercier C, Legube G, Caron C, Louwagie M, Garin J, Trouche D and Khochbin S
Tip60 acetyltransferase activity is controlled by phosphorylation.
J. Biol. Chem, 278(7): 4713-8

Mollinari C, Reynaud C, Martineau-Thuillier S, Monier S, Kieffer S, Garin J, Andreassen PR, Boulet A, Goud B, Kleman JP and Margolis RL
The mammalian passenger protein TD-60 is an RCC1 family member with an essential role in prometaphase to metaphase progression.
Dev. Cell, 5(2): 295-307

Poinssot B, Vandelle E, Bentejac M, Adrian M, Levis C, Brygoo Y, Garin J, Sicilia F, Coutos-Thevenot P and Pugin A
The endopolygalacturonase 1 from Botrytis cinerea activates grapevine defense reactions unrelated to its enzymatic activity.
Mol. Plant Microbe Interact, 16(6): 553-64

Prevot D, Decimo D, Herbreteau CH, Roux F, Garin J, Darlix JL and Ohlmann T
Characterization of a novel RNA-binding region of eIF4GI critical for ribosomal scanning.
EMBO J, 22(8): 1909-21

Rolland N, Ferro M, Seigneurin-Berny D, Garin J, Douce R and Joyard J
Proteomics of chloroplast envelope membranes.
Photosynthesis Res., 78(3): 205-230

Siaut M, Zaros C, Levivier E, Ferri ML, Court M, Werner M, Callebaut I, Thuriaux P, Sentenac A and Conesa C
An Rpb4/Rpb7-like complex in yeast RNA polymerase III contains the orthologue of mammalian CGRP-RCP.
Mol. Cell. Biol, 23(1): 195-205

Starita-Geribaldi M, Roux F, Garin J, Chevallier D, Fenichel P and Pointis G
Development of narrow immobilized pH gradients covering one pH unit for human seminal plasma proteomic analysis.
Proteomics, 3(8): 1611-9

Van Niel G, Mallegol J, Bevilacqua C, Candalh C, Brugiere S, Tomaskovic-Crook E, Heath JK, Cerf-Bensussan N and Heyman M
Intestinal epithelial exosomes carry MHC class II/peptides able to inform the immune system in mice.
Gut, 52(12): 1690-7


Bardel J, Louwagie M, Jaquinod M, Jourdain A, Luche S, Rabilloud T, Macherel D, Garin J and Bourguignon J
A survey of the plant mitochondrial proteome in relation to development.
Proteomics, 2: 880-898

Bebien M, Lagniel G, Garin J, Touati D, Vermeglio A and Labarre J
Involvment of superoxide dismutases in th response of Escherichia coli to selenium oxides.
J. Bacteriol., 184: 1556-1564

Bogdanovic A, Bennett N, Kieffer S, Louwagie M, Morio T, Garin J, Satre M and Bruckert F
Syntaxin 7, Syntaxin 8, Vti1 and VAMP7 form an active SNARE complex for early macropinocytic compartment fusion in Dictyostelium discoideum.
Biochem. J., 368(Pt 1): 29-39

Chapal N, Laplanche M, Ribes G, Pau B, Garin J and Petit P
Pharmaco-proteomic analysis: Application of proteomic analysis to the discovery and development of new drugs.
J. Soc. Biol., 196(4): 317-22

Ferro M, Salvi D, Rivière-Rolland H, Vermat T, Seigneurin-Berny D, Grunwald D, Garin J, Joyard J and Rolland N
Integral membrane proteins of the chloroplast envelope: Identification and subcellular localization of new transporters.
Proceedings of the National Academy of Sciences USA, 2002, 99: 11487-11492

Gauthier L, Rossi B, Roux F, Termine E and Schiff C
Galectin-1 is a stromal cell ligand of the pre-B cell receptor (BCR) implicated in synapse formation between pre-B and stromal cells and in pre-BCR triggering.
Proc. Natl. Acad. Sci. USA, 99: 13014-13019

Guzman-Verri C, Manterola L, Sola-Landa A, Parra A, Cloeckaert A, Garin J, Gorvel JP, Moriyon I, Moreno E and Lopez-Goni I
The two-component system BvrR/BvrS essential for Brucella abortus virulence regulates the expression of outer membrane proteins with counterparts in members of the Rhizobiaceae.
Proc. Natl. Acad. Sci. USA, 99(19): 12375-80

Journet A, Chapel A, Kieffer S, Roux F and Garin J
Proteomic analysis of human lysosomes: Application to monocytic and breast cancer cells.
Proteomics, 2: 1026-1040

Magnard C, Bachelier R, Vincent A, Jaquinod M, Kieffer S, Lenoir GM and Venezia ND
BRCA1 interacts with acetyl-CoA carboxylase through its tandem of BRCT domains.
Oncogene, 21(44): 6729-39

Mbele GO, Deloulme JC, Gentil BJ, Delphin C, Ferro M, Garin J, Takahashi M and Baudier J
The zinc- and calcium-binding S100B interacts and co-localizes with IQGAP1 during dynamic rearrangement of cell membranes.
J. Biol. Chem., 277(51): 49998-50007

Miras S, Salvi D, Ferro M, Grunwald D, Garin J, Joyard J and Rolland N
Non-canonical transit peptide for import into the chloroplast.
J. Biol. Chem., 277(49): 47770-8

Ohlmann T, Prevot D, Decimo D, Roux F, Garin J, Morley SJ and Darlix JL
In vitro cleavage of eIF4GI but not eIFGII by HIV-1 protease and its effects on translation in the rabbit reticulocyte lysate system.
J. Mol. Biol., 318: 9-20Pizzaro-Cerda J, Jonquieres R, Gouin E, Vandekerckove J, Garin J and Cossart P
Distinct protein patterns associated with Listeria monocytogenes InlA- or InlB- phagosomes.

Cell. Microbiol., 4: 101-115


Dermine J.F, Duclos S, Garin J, St-Louis F, Rea S, Parton R and Desjardins M
Flotillin-1-enriched lipid raft domains accumulate on maturing phagososmes.
J. Biol. Chem., 276: 18507-18512

Garin J, Diez R, Kieffer S, Dermine JF, Duclos S, Gagnon E, Sadoul R, Rondeau C and Desjardins M
The phagocyte proteome: Insight into phagocyte functions.
J. Cell Biol., 152: 165-180

Garin J, Ferro M, Rolland N and Joyard J
Stratégies en protéomique : outils, limites et développements. Génomique fonctionnelle chez les végétaux : du gène à la fonction. J. J. H. Barbier-Brygoo, Morot-Gaudry J.F. & Gaymard F, 2001, 39-48

Garin J, Ferro M, Rolland N, Riviere-Rolland H, Viari V and Joyard J
Méthodes de la protéomique, limites et développements technologiques. Exemple des protéines membranaires végétales.
C. R. Acad. Agric. Fr., 2001, 87: 9-20

Gentil B, Delphin C, Ouengue G, Deloulme J.C, Ferro M, Garin J and Baudier J
The giant protein AHNAK is a specific target for the calcium and zinc-binding S100B protein. Potential implication for Ca2+ homeostasis regulation by S100B.
J. Biol. Chem., 276: 23253-23261

Morris-Desbois C, Rety S, Ferro M, Garin J and Jalinot P
The human protein HSPC021 interacts with Int-6 and is associated with eukaryotic translation initiation factor 3.
J. Biol. Chem., 276: 45988-45995

Prouzet-Mauleon V, Monribot-Espagne C, Boucherie H, Lagniel G, Lopez S, Labarre J, Garin J and Lauquin GJ
Identification in S. cerevisiae of a new stable variant of alkyl hydroperoxide reductase 1 (Ahp1) induced by oxidative stress.
J. Biol. Chem., 277: 4823-4830

Rampazzo P, Biasiolo A, Garin J, Rosato A, Betterle C, Ruffatti A and Pengo V
Some patients with antiphospholipid syndrome express hitherto undescribed antibodies to cardiolipin-binding proteins.
Thromb. Haemost., 85: 57-62

Seigneurin-Berny D, Verdel A, Curtet S, Lemercier C, Garin J, Rousseaux S and Khochbin S
Identification of components of the murine histone deacetylase 6 complex: Link between acetylation and ubiquitination signaling pathways.
Mol. Cell. Biol., 23: 8035-8044

Starita-Geribaldi M, Poggioli S, Zucchini M, Garin J, Chevallier D, Fenichel P and Pointis G
Mapping of seminal plasma proteins by two-dimensional gel electrophoresis in men with normal and impaired spermatogenesis.
Mol. Hum. Reprod., 8: 715-722

Théry C, Boussac M, Véron P, Ricciardi-Castagnoli, P, Raposo G, Garin J and Amigorena S
Proteomic analysis of dendritic cell-derived exosomes, a secreted subcellular compartment distinct from apoptotic vesicles.
J. Immunol., 166: 7309-7318

Van Niel, G, Raposo, G, Candalh, C, Boussac, M, Hershberg, R, Cerf-bensussan, N and Heyman M
Intestinal epithelial cells secrete exosome-like vesicles.
Gastroenterology, 121: 337-349


Boutonnat J, Ducros V, Pinel C, Kieffer S, Favier A, Garin J and Seigneurin D
Identification of amylase crystalloids in cystic lesions of the parotid gland.
Acta Cytol., 44: 51-56

Boussac M and Garin J
Calcium-dependent secretion in human neutrophils: A proteomic approach.
Electrophoresis, 267: 2062-2070

Dianoux AC, Noel F, Fiore C, Trezeguet V, Kieffer S, Jaquinod M, Lauquin GJ and Brandolin G
Two distinct regions of the yeast mitochondrial ADP/ATP carrier are photolabeled by a new ADP analogue: 2-azido-3′-O-naphthoyl-[beta-32P]ADP. Identification of the binding segments by mass spectrometry.
Biochemistry, 39: 11477-87

Duclos S, Diez R, Garin J, Papadopoulou B, Descoteaux A, Stenmark H and Desjardins M
Rab5 regulates the kiss and run fusion between phagosomes and endosomes and the acquisition of phagosome leishmanicidal properties in RAW 264.7 macrophages.
J. Cell. Sci., 113: 3531-41

Ferro M, Lorquin J, Ba S, Sanon K, Prome JC and Boivin C
Bradyrhizobium sp. strains that nodulate the leguminous tree Acacia albida produce fucosylated and partially sulfated nod factors.
Appl. Environ. Microbiol., 66: 5078-82

Ferro M, Seigneurin D, Rolland N, Chapel A, Salvi D, Garin J and Joyard J
Organic solvent extraction as a versatile procedure to identify hydrophobic chloroplast proteins.
Electrophoresis, 21: 3517-3526

Gaudin P, Trocme C, Berthier S, Kieffer S, Boutonnat J, Lamy C, Surla A, Garin J and Morel F
TIMP-1/MMP-9 imbalance in an EBV-immortalized B lymphocyte cellular model: Evidence for multifunctional properties.
Biochim. Biophys. Acta, 1499: 19-33

Gueguen V, Macherel D, Jaquinod M, Douce R and Bourguignon J
Fatty acid and lipoic acid biosynthesis in high plant mitochondria.
Journal of Biological Chemistry, 2000, 275(7): 5016-5025

Journet A, Chapel A, Kieffer S, Louwagie M, Luche S and Garin J
Towards a human repertoire of monocytic lysosomal proteins.
Electrophoresis, 21: 3411-3419

Nosjean O, Ferro M, Coge F, Beauverger P, Henlin JM, Lefoulon F, Fauchere JL, Delagrange P, Canet E and Boutin JA
Identification of the melatonin-binding site MT3 as the quinone reductase 2.
J. Biol. Chem., 275: 31311-7

Santoni V, Kieffer S, Desclaux D, Masson F and Rabilloud T
Membrane proteomics: Use of additive main effects with multiplicative interaction model to classify plasma membrane proteins according to their solubility and electrophoretic properties.
Electrophoresis, 21: 3329-44

 Weidenhaupt M, Bruckert F, Louwagie M, Garin J and Satre M
Functional and molecular identification of novel members of the ubiquitous membrane fusion proteins alpha and gamma SNAP families in Dictyostelium discoideum.
Eur. J. Biochem., 267: 2062-2070


Inventors: Patrice CAILLAT, Anne-Gaëlle BOURDAT, Virginie BRUN, Benoît GILQUIN

Abstract: The invention relates to a device for preparing a blood sample, including a microfluidic card (C) comprising: a first chamber (1, 1′, 10, 10′, 100) for separating and/or extracting proteins to be analysed that are present in the blood sample; a second chamber (2, 24, 30, 30′, 400) used for an operation involving the digestion of proteins of different species that are present in the sample, in order to obtain a second sample containing digested peptides and non-digested proteins; and a third chamber (3, 3′, 40, 40′, 500) connected to the second chamber such as to receive the second sample containing the digested peptides and the non-digested proteins, said third chamber being used for an operation involving the purification and stabilisation of the digested peptides.


Inventors: Jérôme GARIN, Christophe MASSELON, Antonia VLAHOU, Manousos MAKRYDAKIS, Ieronimos ZOIDAKIS, Bruno DOMON, Elodie DURIEZ, Aurélie KAMOUN, François RADVANYI, Yves ALLORY, Nuria MALATS RIERA

Abstract: The invention relates to a collection of signature peptides representing at least 10 proteins for use in cancer diagnosis and/or prognosis, to an artificial protein comprising signature peptides representing at least 10 proteins and to a nucleic acid construct encoding for such an artificial protein. The invention further relates to a collection of at least 10 proteins for use in cancer diagnosis and/or prognosis. Additionally, the invention relates to a method for cancer diagnosis and/or prognosis comprising the step of analyzing at least 10 proteins in a urine sample of a subject. Finally, the invention relates to an immunoassay product comprising antibodies for detecting at least 10 proteins.

WO/2017/121974: Process for in vitro diagnosis of hepatic disorders

Inventors: Virginie BRUN, Jérôme GARIN, Christophe BRULEY, Jamila FAIVRE, Jean-Pierre ZARSKI, Vincent LEROY

Abstract: Process for in vitro diagnosis and/or monitoring and/or prognosis and/or theranosis of hepatic disorders from a biological sample originating from a subject, in which process the presence and/or the concentration of the marker ADH1B (SEQ ID NO.2) and/or the presence and/or the concentration of the combination of the markers ADH1B (SEQ ID NO.2) and ADH1A(SEQ ID NO.1) is determined.


Inventors: Sébastien HENTZ, Christophe MASSELON

Abstract: PROBLEM TO BE SOLVED: To provide an efficient system in which all components are in proximity, by combining a device for injecting neutral and/or ionized species, a guidance device and an NEMS type detector.SOLUTION: A device for determining the mass of a particle in a suspension or in solution in a liquid comprises: a first device 2 for nebulization of a liquid 4 to obtain a flux comprising at least the particle; a second device 6 for guidance and aerodynamic focusing of the flux; and a third device 12 for determining the mass of the particle by frequency measurement, the third device comprising at least one gravimetric detector 14 arranged opposite an outlet of the second device in order to receive the particle.

WO/2013/104688: CYCLON expression for the identification and control of cancer cells


Abstract: The present invention concerns a method for the identification of the presence or absence of cancer cells in a biological sample, more particularly a method for the identification of the susceptibility or resistance to a treatment with CD20 agonists of cancer cells in a biological sample, said methods comprising determining the level of expression of the gene Cyclon in said cells and comparing said level of expression to the level of expression in a non-cancer cell, wherein a level of expression higher than the level of expression in a non-cancer cell is an indication of the presence of a cancer cell, more particularly an indication of cancer cells with a resistance to treatment with antagonists. The invention also concerns kits for the determination of a level of expression of the Cyclon gene in a biological sample, a method for the identification of Cyclon expression antagonists, as well as methods for treating patients in need thereof with CD20 agonists when the patients are identified to be susceptible to such a treatment and/or treating patients in need thereof with a combination of a Cyclon inhibitor and a CD20 agonists.

WO/2008/145763: Method for absolute quantification of polypeptides

PCT1/IB2007/053424 and PCT2/EP2008/056795
Inventors: Virginie BRUN, Alain DUPUIS , Jérôme GARIN

Abstract: The present invention relates to a method for absolute quantification of polypeptides.

WO/2004/001050: Plastidial targeting peptide

PCT/FR03/01877 (2003-06-18) International extension
Inventors : Stéphane MIRAS, Daniel SALVI, Norbert ROLLAND, Jacques JOYARD, Myriam FERRO, Jérôme GARIN, Didier GRÜNWALD

Abstract: The invention relates to a non-cleavable, plastidial targeting polypeptide derived from a protein from the inner membrane of plant chloroplasts. Said peptide is particularly suitable for importing proteins on interest in plants.