Publications

Publications 2019

Wieczorek, S., Combes, F., Borges, H., & Burger, T. (2019). Protein-Level Statistical Analysis of Quantitative Label-Free Proteomics Data with ProStaR. Methods in Molecular Biology (Clifton, N.J.), 1959, 225–246. https://doi.org/10.1007/978-1-4939-9164-8_15
Kraut, A., Louwagie, M., Bruley, C., Masselon, C., Couté, Y., Brun, V., & Hesse, A.-M. (2019). Protein Biomarker Discovery in Non-depleted Serum by Spectral Library-Based Data-Independent Acquisition Mass Spectrometry. Methods in Molecular Biology (Clifton, N.J.), 1959, 129–150. https://doi.org/10.1007/978-1-4939-9164-8_9
Legendre, M., Alempic, J.-M., Philippe, N., Lartigue, A., Jeudy, S., Poirot, O., … Claverie, J.-M. (2019). Pandoravirus Celtis Illustrates the Microevolution Processes at Work in the Giant Pandoraviridae Genomes. Frontiers in Microbiology, 10, 430. https://doi.org/10.3389/fmicb.2019.00430
Nguyen, L., Brun, V., Combes, F., Loux, V., & Vandenbrouck, Y. (2019). Designing an In Silico Strategy to Select Tissue-Leakage Biomarkers Using the Galaxy Framework. Methods in Molecular Biology (Clifton, N.J.), 1959, 275–289. https://doi.org/10.1007/978-1-4939-9164-8_18
Louwagie, M., Kieffer-Jaquinod, S., & Brun, V. (2019). Ultrasensitive Quantification of Recombinant Proteins Using AAA-MS. Methods in Molecular Biology (Clifton, N.J.), 2030, 1–10. https://doi.org/10.1007/978-1-4939-9639-1_1
Siebert, C., Lindgren, H., Ferré, S., Villers, C., Boisset, S., Perard, J., … Renesto, P. (2019). Francisella tularensis: FupA mutation contributes to fluoroquinolone resistance by increasing vesicle secretion and biofilm formation. Emerging Microbes & Infections, 8(1), 808–822. https://doi.org/10.1080/22221751.2019.1615848
Borges, H., Guibert, R., Permiakova, O., & Burger, T. (2019). Distinguishing between Spectral Clustering and Cluster Analysis of Mass Spectra. Journal of Proteome Research, 18(1), 571–573. https://doi.org/10.1021/acs.jproteome.8b00516
Pinaud, S., Portet, A., Allienne, J.-F., Belmudes, L., Saint-Beat, C., Arancibia, N., … Gourbal, B. (2019). Molecular characterisation of immunological memory following homologous or heterologous challenges in the schistosomiasis vector snail, Biomphalaria glabrata. Developmental and Comparative Immunology, 92, 238–252. https://doi.org/10.1016/j.dci.2018.12.001
Steingruber, M., Keller, L., Socher, E., Ferre, S., Hesse, A.-M., Couté, Y., … Marschall, M. (2019). Cyclins B1, T1, and H differ in their molecular mode of interaction with cytomegalovirus protein kinase pUL97. The Journal of Biological Chemistry, 294(15), 6188–6203. https://doi.org/10.1074/jbc.RA118.007049
Azevedo, J., Picart, C., Dureau, L., Pontier, D., Jaquinod-Kieffer, S., Hakimi, M.-A., & Lagrange, T. (2019). UAP56 associates with DRM2 and is localized to chromatin in Arabidopsis. FEBS Open Bio, 9(5), 973–985. https://doi.org/10.1002/2211-5463.12627
Braun, L., Brenier-Pinchart, M.-P., Hammoudi, P.-M., Cannella, D., Kieffer-Jaquinod, S., Vollaire, J., … Hakimi, M.-A. (2019). The Toxoplasma effector TEEGR promotes parasite persistence by modulating NF-κB signalling via EZH2. Nature Microbiology, 4(7), 1208–1220. https://doi.org/10.1038/s41564-019-0431-8
Bouchnak, I., Brugière, S., Moyet, L., Le Gall, S., Salvi, D., Kuntz, M., … Rolland, N. (2019). Unraveling Hidden Components of the Chloroplast Envelope Proteome: Opportunities and Limits of Better MS Sensitivity. Molecular & Cellular Proteomics: MCP, 18(7), 1285–1306. https://doi.org/10.1074/mcp.RA118.000988
Guillot, L., Delage, L., Viari, A., Vandenbrouck, Y., Com, E., Ritter, A., … Pineau, C. (2019). Peptimapper: proteogenomics workflow for the expert annotation of eukaryotic genomes. BMC Genomics, 20(1), 56. https://doi.org/10.1186/s12864-019-5431-9
Wei, J., Kishton, R. J., Angel, M., Conn, C. S., Dalla-Venezia, N., Marcel, V., … Yewdell, J. W. (2019). Ribosomal Proteins Regulate MHC Class I Peptide Generation for Immunosurveillance. Molecular Cell. https://doi.org/10.1016/j.molcel.2018.12.020
Lupette, J., Jaussaud, A., Seddiki, K., Morabito, C., Brugière, S., Schaller, H., … Maréchal, E. (2019). The architecture of lipid droplets in the diatom Phaeodactylum tricornutum. Algal Research, 38, 101415. https://doi.org/10.1016/j.algal.2019.101415
Do, L. D., Gupton, S. L., Tanji, K., Bastien, J., Brugière, S., Couté, Y., … Honnorat, J. (2019). TRIM9 and TRIM67 Are New Targets in Paraneoplastic Cerebellar Degeneration. Cerebellum (London, England), 18(2), 245–254. https://doi.org/10.1007/s12311-018-0987-5
Sentausa, E., Basso, P., Berry, A., Adrait, A., Bellement, G., Couté, Y., … Attrée, I. (2019). Insertion sequences drive the emergence of a highly adapted human pathogen. Microbial Genomics. https://doi.org/10.1099/mgen.0.000265
Hajj Chehade, M., Pelosi, L., Fyfe, C. D., Loiseau, L., Rascalou, B., Brugière, S., … Pierrel, F. (2019). A Soluble Metabolon Synthesizes the Isoprenoid Lipid Ubiquinone. Cell Chemical Biology, 26(4), 482-492.e7. https://doi.org/10.1016/j.chembiol.2018.12.001
Sonego, M., Pellarin, I., Costa, A., Vinciguerra, G. L. R., Coan, M., Kraut, A., … Baldassarre, G. (2019). USP1 links platinum resistance to cancer cell dissemination by regulating Snail stability. Science Advances, 5(5), eaav3235. https://doi.org/10.1126/sciadv.aav3235
Bhalla, P., Vernekar, D. V., Gilquin, B., Couté, Y., & Bhargava, P. (2019). Interactome of the yeast RNA polymerase III transcription machinery constitutes several chromatin modifiers and regulators of the genes transcribed by RNA polymerase II. Gene, 702, 205–214. https://doi.org/10.1016/j.gene.2018.12.037
van Lis, R., Brugière, S., Baffert, C., Couté, Y., Nitschke, W., & Atteia, A. (2019). Hybrid cluster proteins in a photosynthetic microalga. The FEBS Journal. https://doi.org/10.1111/febs.15025
Chiumento, S., Roblin, C., Kieffer-Jaquinod, S., Tachon, S., Leprètre, C., Basset, C., … Duarte, V. (2019). Ruminococcin C, a promising antibiotic produced by a human gut symbiont. Science Advances, 5(9), eaaw9969. https://doi.org/10.1126/sciadv.aaw9969
Dell’Aglio, E., Giustini, C., Kraut, A., Coute, Y., Costa, A., Decros, G., … Curien, G. (2019). Identification of the Arabidopsis calmodulin-dependent NAD+ kinase that sustains the elicitor-induced oxidative burst. Plant Physiology. https://doi.org/10.1104/pp.19.00912
Darrieutort-Laffite, C., Arnolfo, P., Garraud, T., Adrait, A., Couté, Y., Louarn, G., … Blanchard, F. (2019). Rotator Cuff Tenocytes Differentiate into Hypertrophic Chondrocyte-Like Cells to Produce Calcium Deposits in an Alkaline Phosphatase-Dependent Manner. Journal of Clinical Medicine, 8(10). https://doi.org/10.3390/jcm8101544
Desroches-Castan, A., Tillet, E., Ricard, N., Ouarné, M., Mallet, C., Belmudes, L., … Feige, J.-J. (2019). Bone Morphogenetic Protein 9 Is a Paracrine Factor Controlling Liver Sinusoidal Endothelial Cell Fenestration and Protecting Against Hepatic Fibrosis. Hepatology (Baltimore, Md.), 70(4), 1392–1408. https://doi.org/10.1002/hep.30655
Beurton, F., Stempor, P., Caron, M., Appert, A., Dong, Y., Chen, R. A.-J., … Palladino, F. (2019). Physical and functional interaction between SET1/COMPASS complex component CFP-1 and a Sin3S HDAC complex in C. elegans. Nucleic Acids Research. https://doi.org/10.1093/nar/gkz880
Moulin, M., Mossou, E., Signor, L., Kieffer-Jaquinod, S., Kwaambwa, H. M., Nermark, F., … Rennie, A. R. (2019). Towards a molecular understanding of the water purification properties of Moringa seed proteins. Journal of Colloid and Interface Science, 554, 296–304. https://doi.org/10.1016/j.jcis.2019.06.071
Deutsch, E. W., Lane, L., Overall, C. M., Bandeira, N., Baker, M. S., Pineau, C., … Omenn, G. S. (2019). Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0. Journal of Proteome Research. https://doi.org/10.1021/acs.jproteome.9b00542
Vandenbrouck, Y., Christiany, D., Combes, F., Loux, V., & Brun, V. (2019). Bioinformatics Tools and Workflow to Select Blood Biomarkers for Early Cancer Diagnosis: An Application to Pancreatic Cancer. Proteomics, 19(21–22), e1800489. https://doi.org/10.1002/pmic.201800489