Publications 2013

Bruley, C., Dupierris, V., Salvi, D., Rolland, N., & Ferro, M. (2012). AT_CHLORO: A Chloroplast Protein Database Dedicated to Sub-Plastidial Localization. Front Plant Sci, 3, 205.
Tardif, M., Atteia, A., Specht, M., Cogne, G., Rolland, N., Brugière, S., Hippler, M., Ferro, M., Bruley, C., Peltier, G., Vallon, O., & Cournac, L. (2012). PredAlgo: a new subcellular localization prediction tool dedicated to green algae. Molecular Biology and Evolution, 29(12), 3625–3639.
Ivaldi, C., Martin, B. R., Kieffer-Jaquinod, S., Chapel, A., Levade, T., Garin, J., & Journet, A. (2012). Proteomic analysis of S-acylated proteins in human B cells reveals palmitoylation of the immune regulators CD20 and CD23. PloS One, 7(5), e37187.
Forestier, A., Sarrazy, F., Caillat, S., Vandenbrouck, Y., & Sauvaigo, S. (2012). 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, 7(12), e51754.
Filhol, O., Ciais, D., Lajaunie, C., Charbonnier, P., Foveau, N., Vert, J.-P., & Vandenbrouck, Y. (2012). DSIR: assessing the design of highly potent siRNA by testing a set of cancer-relevant target genes. PloS One, 7(10), e48057.
Destercke, S., & Burger, T. (2012). Revisiting the Notion of Conflicting Belief Functions. In Belief Functions: Theory and Applications (pp. 153–160). Springer, Berlin, Heidelberg.
Burger, T., & Destercke, S. (2012). Random Generation of Mass Functions: A Short Howto. In Belief Functions: Theory and Applications (pp. 145–152). Springer, Berlin, Heidelberg.
Journet, A., Klein, G., Brugière, S., Vandenbrouck, Y., Chapel, A., Kieffer, S., Bruley, C., Masselon, C., & Aubry, L. (2012). Investigating the macropinocytic proteome of Dictyostelium amoebae by high-resolution mass spectrometry. Proteomics, 12(2), 241–245.
Govin, J., Gaucher, J., Ferro, M., Debernardi, A., Garin, J., Khochbin, S., & Rousseaux, S. (2012). Proteomic strategy for the identification of critical actors in reorganization of the post-meiotic male genome. Molecular Human Reproduction, 18(1), 1–13.
Tarrago, L., Kieffer-Jaquinod, S., Lamant, T., Marcellin, M. N., Garin, J. R. M., Rouhier, N., & Rey, P. (2012). Affinity chromatography: a valuable strategy to isolate substrates of methionine sulfoxide reductases? Antioxidants & Redox Signaling, 16(1), 79–84.
Greco, A., Arata, L., Soler, E., Gaume, X., Couté, Y., Hacot, S., Callé, A., Monier, K., Epstein, A. L., Sanchez, J.-C., Bouvet, P., & Diaz, J.-J. (2012). Nucleolin interacts with US11 protein of herpes simplex virus 1 and is involved in its trafficking. Journal of Virology, 86(3), 1449–1457.
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., & Brun, V. (2012). Accurate quantification of cardiovascular biomarkers in serum using Protein Standard Absolute Quantification (PSAQTM) and selected reaction monitoring. Molecular & Cellular Proteomics: MCP, 11(2), M111.008235.
Lupo, J., Conti, A., Sueur, C., Coly, P.-A., Couté, Y., Hunziker, W., Burmeister, W. P., Germi, R., Manet, E., Gruffat, H., Morand, P., & Boyer, V. (2012). Identification of new interacting partners of the shuttling protein ubinuclein (Ubn-1). Experimental Cell Research, 318(5), 509–520.
Jaquinod, M., Trauchessec, M., Huillet, C., Louwagie, M., Lebert, D., Picard, G., Adrait, A., Dupuis, A., Garin, J., Brun, V., & Bruley, C. (2012). Mass spectrometry-based absolute protein quantification: PSAQTM strategy makes use of “noncanonical” proteotypic peptides. Proteomics, 12(8), 1217–1221.
Paik, Y.-K., Omenn, G. S., Uhlen, M., Hanash, S., Marko-Varga, G., Aebersold, R., Bairoch, A., Yamamoto, T., Legrain, P., Lee, H.-J., Na, K., Jeong, S.-K., He, F., Binz, P.-A., Nishimura, T., Keown, P., Baker, M. S., Yoo, J. S., Garin, J., … Hancock, W. S. (2012). Standard guidelines for the chromosome-centric human proteome project. Journal of Proteome Research, 11(4), 2005–2013.
Kurowska, M., Goudin, N., Nehme, N. T., Court, M., Garin, J., Fischer, A., de Saint Basile, G., & Ménasché, G. (2012). Terminal transport of lytic granules to the immune synapse is mediated by the kinesin-1/Slp3/Rab27a complex. Blood, 119(17), 3879–3889.
Wade, A., Thomas, C., Kalmar, B., Terenzio, M., Garin, J., Greensmith, L., & Schiavo, G. (2012). Activated leukocyte cell adhesion molecule modulates neurotrophin signaling. Journal of Neurochemistry, 121(4), 575–586.
Huang, Y., Yoon, S. H., Heron, S. R., Masselon, C. D., Edgar, J. S., Tureček, F., & Goodlett, D. R. (2012). Surface acoustic wave nebulization produces ions with lower internal energy than electrospray ionization. Journal of the American Society for Mass Spectrometry, 23(6), 1062–1070.
Adrait, A., Lebert, D., Trauchessec, M., Dupuis, A., Louwagie, M., Masselon, C., Jaquinod, M., Chevalier, B., Vandenesch, F., Garin, J., Bruley, C., & Brun, V. (2012). Development of a Protein Standard Absolute Quantification (PSAQTM) assay for the quantification of Staphylococcus aureus enterotoxin A in serum. Journal of Proteomics, 75(10), 3041–3049.
Mininno, M., Brugière, S., Pautre, V., Gilgen, A., Ma, S., Ferro, M., Tardif, M., Alban, C., & Ravanel, S. (2012). Characterization of chloroplastic fructose 1,6-bisphosphate aldolases as lysine-methylated proteins in plants. The Journal of Biological Chemistry, 287(25), 21034–21044.
Merle, N., Féraud, O., Gilquin, B., Hubstenberger, A., Kieffer-Jacquinot, S., Assard, N., Bennaceur-Griscelli, A., Honnorat, J., & Baudier, J. (2012). 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, 12(4), 441–448.
Xie, L. X., Ozeir, M., Tang, J. Y., Chen, J. Y., Jaquinod, S.-K., Fontecave, M., Clarke, C. F., & Pierrel, F. (2012). Overexpression of the Coq8 kinase in Saccharomyces cerevisiae coq null mutants allows for accumulation of diagnostic intermediates of the coenzyme Q6 biosynthetic pathway. The Journal of Biological Chemistry, 287(28), 23571–23581.
Louwagie, M., Kieffer-Jaquinod, S., Dupierris, V., Couté, Y., Bruley, C., Garin, J., Dupuis, A., Jaquinod, M., & Brun, V. (2012). Introducing AAA-MS, a rapid and sensitive method for amino acid analysis using isotope dilution and high-resolution mass spectrometry. Journal of Proteome Research, 11(7), 3929–3936.
Schvartz, D., Couté, Y., Brunner, Y., Wollheim, C. B., & Sanchez, J.-C. (2012). Modulation of neuronal pentraxin 1 expression in rat pancreatic β-cells submitted to chronic glucotoxic stress. Molecular & Cellular Proteomics: MCP, 11(8), 244–254.
Schvartz, D., Brunner, Y., Couté, Y., Foti, M., Wollheim, C. B., & Sanchez, J.-C. (2012). Improved characterization of the insulin secretory granule proteomes. Journal of Proteomics, 75(15), 4620–4631.
Yoon, S. H., Huang, Y., Edgar, J. S., Ting, Y. S., Heron, S. R., Kao, Y., Li, Y., Masselon, C. D., Ernst, R. K., & Goodlett, D. R. (2012). Surface acoustic wave nebulization facilitating lipid mass spectrometric analysis. Analytical Chemistry, 84(15), 6530–6537.
Courty, N., Burger, T., & Marteau, P.-F. (2012). Geodesic Analysis on the Gaussian RKHS Hypersphere. Machine Learning and Knowledge Discovery in Databases, 299–313.
Picard, G., Lebert, D., Louwagie, M., Adrait, A., Huillet, C., Vandenesch, F., Bruley, C., Garin, J., Jaquinod, M., & Brun, V. (2012). PSAQTM standards for accurate MS-based quantification of proteins: from the concept to biomedical applications. Journal of Mass Spectrometry: JMS, 47(10), 1353–1363.
Ozeir, M. O., Xie, L. X., Chehade, M. H., Tang, J. Y., Jacquinod, S.-K., Fontecave, M., Pierrel, F., & Clarke, C. F. (2012). In vivo accumulation of coenzyme Q biosynthetic intermediates and aminated analogs in the yeast Saccharomyces cerevisiae. BBA - Bioenergetics, 1817, S92–S92.
Tarasova, I. A., Perlova, T. Y., Pridatchenko, M. L., Goloborod’ko, A. A., Levitsky, L. I., Evreinov, V. V., Guryca, V., Masselon, C. D., Gorshkov, A. V., & Gorshkov, M. V. (2012). Inversion of chromatographic elution orders of peptides and its importance for proteomics. Journal of Analytical Chemistry, 67(13), 1014–1025.
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. (2012). Heptahelical protein PQLC2 is a lysosomal cationic amino acid exporter underlying the action of cysteamine in cystinosis therapy. Proceedings of the National Academy of Sciences of the United States of America, 109(50), E3434-3443.