Publications 2014

Engel, E., Viargues, P., Mortier, M., Taillebourg, E., Couté, Y., Thevenon, D., & Fauvarque, M.-O. (2014). Identifying USPs regulating immune signals in Drosophila: USP2 deubiquitinates Imd and promotes its degradation by interacting with the proteasome. Cell Communication and Signaling: CCS, 12, 41.
Forterre, A., Jalabert, A., Berger, E., Baudet, M., Chikh, K., Errazuriz, E., De Larichaudy, J., Chanon, S., Weiss-Gayet, M., Hesse, A.-M., Record, M., Geloen, A., Lefai, E., Vidal, H., Couté, Y., & Rome, S. (2014). Proteomic analysis of C2C12 myoblast and myotube exosome-like vesicles: a new paradigm for myoblast-myotube cross talk? PloS One, 9(1), e84153.
van Rooyen, J. M., Murat, J.-B., Hammoudi, P.-M., Kieffer-Jaquinod, S., Coute, Y., Sharma, A., Pelloux, H., Belrhali, H., & Hakimi, M.-A. (2014). Assembly of the novel five-component apicomplexan multi-aminoacyl-tRNA synthetase complex is driven by the hybrid scaffold protein Tg-p43. PloS One, 9(2), e89487.
Legres, L. G., Janin, A., Masselon, C., & Bertheau, P. (2014). Beyond laser microdissection technology: follow the yellow brick road for cancer research. American Journal of Cancer Research, 4(1), 1–28.
Niarakis, A., Bounab, Y., Grieco, L., Roncagalli, R., Hesse, A.-M., Garin, J., Malissen, B., Daëron, M., & Thieffry, D. (2014). Computational modeling of the main signaling pathways involved in mast cell activation. Current Topics in Microbiology and Immunology, 382, 69–93.
Hardré, H., Kuhn, L., Albrieux, C., Jouhet, J., Michaud, M., Seigneurin-Berny, D., Falconet, D., Block, M. A., & Maréchal, E. (2014). 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, 5, 203.
Biard, D., Filhol-Cochet, O., & Vandenbrouck, Y. (2014). Bio-Informatique : Dompter l’expression des gènes avec DSIR. Biofutur, 36(386), 52–55.
Alban, C., Tardif, M., Mininno, M., Brugière, S., Gilgen, A., Ma, S., Mazzoleni, M., Gigarel, O., Martin-Laffon, J., Ferro, M., & Ravanel, S. (2014). Uncovering the protein lysine and arginine methylation network in Arabidopsis chloroplasts. PloS One, 9(4), e95512.
Graindorge, M., Giustini, C., Kraut, A., Moyet, L., Curien, G., & Matringe, M. (2014). Three different classes of aminotransferases evolved prephenate aminotransferase functionality in arogenate-competent microorganisms. The Journal of Biological Chemistry, 289(6), 3198–3208.
Elsen, S., Huber, P., Bouillot, S., Couté, Y., Fournier, P., Dubois, Y., Timsit, J.-F., Maurin, M., & Attrée, I. (2014). A type III secretion negative clinical strain of Pseudomonas aeruginosa employs a two-partner secreted exolysin to induce hemorrhagic pneumonia. Cell Host & Microbe, 15(2), 164–176.
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, J.-M. (2014). Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology. Proceedings of the National Academy of Sciences of the United States of America, 111(11), 4274–4279.
Nguyen-Lefebvre, A. T., Leprun, G., Morin, V., Viñuelas, J., Couté, Y., Madjar, J.-J., Gandrillon, O., & Gonin-Giraud, S. (2014). V-erbA generates ribosomes devoid of RPL11 and regulates translational activity in avian erythroid progenitors. Oncogene, 33(12), 1581–1589.
Lafaye, C., Barbier, E., Miscioscia, A., Saint-Pierre, C., Kraut, A., Couté, Y., Plo, I., Gasparutto, D., Ravanat, J.-L., & Breton, J. (2014). DNA binding of the p21 repressor ZBTB2 is inhibited by cytosine hydroxymethylation. Biochemical and Biophysical Research Communications, 446(1), 341–346.
Trauchessec, M., Jaquinod, M., Bonvalot, A., Brun, V., Bruley, C., Ropers, D., de Jong, H., Garin, J., Bestel-Corre, G., & Ferro, M. (2014). Mass spectrometry-based workflow for accurate quantification of Escherichia coli enzymes: how proteomics can play a key role in metabolic engineering. Molecular & Cellular Proteomics: MCP, 13(4), 954–968.
Doustaly, F., Combes, F., Fiévet, J. B., Berthet, S., Hugouvieux, V., Bastien, O., Aranjuelo, I., Leonhardt, N., Rivasseau, C., Carrière, M., Vavasseur, A., Renou, J.-P., Vandenbrouck, Y., & Bourguignon, J. (2014). Uranium perturbs signaling and iron uptake response in Arabidopsis thaliana roots. Metallomics: Integrated Biometal Science, 6(4), 809–821.
Chapel, L., Burger, T., Courty, N., & Lefèvre, S. (2014). PerTurbo Manifold Learning Algorithm for Weakly Labeled Hyperspectral Image Classification. IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing, 7(4), 1070–1078.
Gatto, L., Breckels, L. M., Wieczorek, S., Burger, T., & Lilley, K. S. (2014). Mass-spectrometry-based spatial proteomics data analysis using pRoloc and pRolocdata. Bioinformatics (Oxford, England), 30(9), 1322–1324.
Pasa-Tolic, L., & Masselon, C. (2014). Shining a spotlight on intact proteins. PROTEOMICS, 14(10), 1125–1127.
Xiol, J., Spinelli, P., Laussmann, M. A., Homolka, D., Yang, Z., Cora, E., Couté, Y., Conn, S., Kadlec, J., Sachidanandam, R., Kaksonen, M., Cusack, S., Ephrussi, A., & Pillai, R. S. (2014). RNA clamping by Vasa assembles a piRNA amplifier complex on transposon transcripts. Cell, 157(7), 1698–1711.
Milbradt, J., Kraut, A., Hutterer, C., Sonntag, E., Schmeiser, C., Ferro, M., Wagner, S., Lenac, T., Claus, C., Pinkert, S., Hamilton, S. T., Rawlinson, W. D., Sticht, H., Couté, Y., & Marschall, M. (2014). Proteomic analysis of the multimeric nuclear egress complex of human cytomegalovirus. Molecular & Cellular Proteomics: MCP, 13(8), 2132–2146.
Tomizioli, M., Lazar, C., Brugière, S., Burger, T., Salvi, D., Gatto, L., Moyet, L., Breckels, L. M., Hesse, A.-M., Lilley, K. S., Seigneurin-Berny, D., Finazzi, G., Rolland, N., & Ferro, M. (2014). Deciphering thylakoid sub-compartments using a mass spectrometry-based approach. Molecular & Cellular Proteomics: MCP, 13(8), 2147–2167.
Gatto, L., Breckels, L. M., Burger, T., Nightingale, D. J. H., Groen, A. J., Campbell, C., Nikolovski, N., Mulvey, C. M., Christoforou, A., Ferro, M., & Lilley, K. S. (2014). A foundation for reliable spatial proteomics data analysis. Molecular & Cellular Proteomics: MCP, 13(8), 1937–1952.
Schvartz, D., Couté, Y., & Sanchez, J.-C. (2014). Quantitative proteomics reveals the link between minichromosome maintenance complex and glucose-induced proliferation of rat pancreatic INS-1E β-cells. Journal of Proteomics, 108, 163–170.
Poirier, A. C., Schmitt, P., Rosa, R. D., Vanhove, A. S., Kieffer-Jaquinod, S., Rubio, T. P., Charrière, G. M., & Destoumieux-Garzón, D. (2014). Antimicrobial histones and DNA traps in invertebrate immunity: evidences in Crassostrea gigas. The Journal of Biological Chemistry, 289(36), 24821–24831.
Estellon, J., Ollagnier de Choudens, S., Smadja, M., Fontecave, M., & Vandenbrouck, Y. (2014). An integrative computational model for large-scale identification of metalloproteins in microbial genomes: a focus on iron-sulfur cluster proteins. Metallomics: Integrated Biometal Science, 6(10), 1913–1930.
Courty, N., Gong, X., Vandel, J., & Burger, T. (2014). SAGA: sparse and geometry-aware non-negative matrix factorization through non-linear local embedding. Machine Learning, 97(1–2), 205–226.
Schild, F., Kieffer-Jaquinod, S., Palencia, A., Cobessi, D., Sarret, G., Zubieta, C., Jourdain, A., Dumas, R., Forge, V., Testemale, D., Bourguignon, J., & Hugouvieux, V. (2014). Biochemical and biophysical characterization of the selenium-binding and reducing site in Arabidopsis thaliana homologue to mammals selenium-binding protein 1. The Journal of Biological Chemistry, 289(46), 31765–31776.
Chapman, J. D., Goodlett, D. R., & Masselon, C. D. (2014). Multiplexed and data-independent tandem mass spectrometry for global proteome profiling. Mass Spectrometry Reviews, 33(6), 452–470.