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Dupierris, V., Hesse, A.-M., Menetrey, J.-P., Bouyssié, D., Burger, T., Couté, Y., & Bruley, C. (2023). Validation of MS/MS Identifications and Label-Free Quantification Using Proline. Methods in Molecular Biology (Clifton, N.J.), 2426, 67–89. https://doi.org/10.1007/978-1-0716-1967-4_4

Tardif, M., Fremy, E., Hesse, A.-M., Burger, T., Couté, Y., & Wieczorek, S. (2023). Statistical Analysis of Quantitative Peptidomics and Peptide-Level Proteomics Data with Prostar. Methods in Molecular Biology (Clifton, N.J.), 2426, 163–196. https://doi.org/10.1007/978-1-0716-1967-4_9

Etourneau, L., Varoquaux, N., & Burger, T. (2023). Unveiling the Links Between Peptide Identification and Differential Analysis FDR Controls by Means of a Practical Introduction to Knockoff Filters. Methods in Molecular Biology (Clifton, N.J.), 2426, 1–24. https://doi.org/10.1007/978-1-0716-1967-4_1

da Silva Barreira, D., Laurent, J., Lourenço, J., Novion Ducassou, J., Couté, Y., Guzzo, J., & Rieu, A. (2023). Membrane vesicles released by Lacticaseibacillus casei BL23 inhibit the biofilm formation of Salmonella Enteritidis. Scientific Reports, 13(1), 1163. https://doi.org/10.1038/s41598-023-27959-9

Durand, S., Bruelle, M., Bourdelais, F., Bennychen, B., Blin-Gonthier, J., Isaac, C., Huyghe, A., Martel, S., Seyve, A., Vanbelle, C., Adrait, A., Couté, Y., Meyronet, D., Catez, F., Diaz, J.-J., Lavial, F., Ricci, E. P., Ducray, F., & Gabut, M. (2023). RSL24D1 sustains steady-state ribosome biogenesis and pluripotency translational programs in embryonic stem cells. Nature Communications, 14(1), 356. https://doi.org/10.1038/s41467-023-36037-7

Bodnar-Wachtel, M., Huber, A.-L., Gorry, J., Hacot, S., Burlet, D., Gérossier, L., Guey, B., Goutagny, N., Bartosch, B., Ballot, E., Lecuelle, J., Truntzer, C., Ghiringhelli, F., Py, B. F., Couté, Y., Ballesta, A., Lantuejoul, S., Hall, J., Tissier, A., & Petrilli, V. (2023). Inflammasome-independent NLRP3 function enforces ATM activity in response to genotoxic stress. Life Science Alliance, 6(4), e202201494. https://doi.org/10.26508/lsa.202201494

Blanco, M., El Khattabi, L., Gobé, C., Crespo, M., Coulée, M., de la Iglesia, A., Ialy-Radio, C., Lapoujade, C., Givelet, M., Delessard, M., Seller-Corona, I., Yamaguchi, K., Vernet, N., Van Leeuwen, F., Lermine, A., Okada, Y., Daveau, R., Oliva, R., Fouchet, P., … Cocquet, J. (2023). DOT1L regulates chromatin reorganization and gene expression during sperm differentiation. EMBO Reports, 24(6), e56316. https://doi.org/10.15252/embr.202256316

Zhamungui Sánchez, E., Hijazi, H., Haidar, J., Mecarelli, E., Bauda, E., Petit-Härtlein, I., Teulon, J.-M., Pellequer, J.-L., & Boeri Erba, E. (2023). Sequencing intact membrane proteins using MALDI mass spectrometry. Frontiers in Analytical Science, 3, 1124741. https://doi.org/10.3389/frans.2023.1124741

Dushime, H., Moreno, S. G., Linard, C., Adrait, A., Couté, Y., Peltzer, J., Messiaen, S., Torres, C., Bensemmane, L., Lewandowski, D., Romeo, P.-H., Petit, V., & Gault, N. (2023). Fetal Muse-based therapy prevents lethal radio-induced gastrointestinal syndrome by intestinal regeneration. Stem Cell Research & Therapy, 14(1), 201. https://doi.org/10.1186/s13287-023-03425-1

Pivard, M., Caldelari, I., Brun, V., Croisier, D., Jaquinod, M., Anzala, N., Gilquin, B., Teixeira, C., Benito, Y., Couzon, F., Romby, P., Moreau, K., & Vandenesch, F. (2023). Complex Regulation of Gamma-Hemolysin Expression Impacts Staphylococcus aureus Virulence. Microbiology Spectrum, 11(4), e0107323. https://doi.org/10.1128/spectrum.01073-23

Shamseddine, L., Roblin, C., Veyrier, I., Basset, C., De Macedo, L., Boyeldieu, A., Maresca, M., Nicoletti, C., Brasseur, G., Kieffer-Jaquinod, S., Courvoisier-Dezord, É., Amouric, A., Carpentier, P., Campo, N., Bergé, M., Polard, P., Perrier, J., Duarte, V., & Lafond, M. (2023). Mechanistic and functional aspects of the Ruminococcin C sactipeptide isoforms. IScience, 26(9), 107563. https://doi.org/10.1016/j.isci.2023.107563

Burger, T. (2023). Controlling for false discoveries subsequently to large scale one-way ANOVA testing in proteomics: Practical considerations. Proteomics, 23(18), e2200406. https://doi.org/10.1002/pmic.202200406

Iuso, D., Garcia-Saez, I., Couté, Y., Yamaryo-Botté, Y., Boeri Erba, E., Adrait, A., Zeaiter, N., Tokarska-Schlattner, M., Jilkova, Z. M., Boussouar, F., Barral, S., Signor, L., Couturier, K., Hajmirza, A., Chuffart, F., Bourova-Flin, E., Vitte, A.-L., Bargier, L., Puthier, D., … Khochbin, S. (2023). Nucleoside diphosphate kinases 1 and 2 regulate a protective liver response to a high-fat diet. Science Advances, 9(36), eadh0140. https://doi.org/10.1126/sciadv.adh0140

Marziali, F., Song, Y., Nguyen, X.-N., Belmudes, L., Burlaud-Gaillard, J., Roingeard, P., Couté, Y., & Cimarelli, A. (2023). A Proteomics-Based Approach Identifies the NEDD4 Adaptor NDFIP2 as an Important Regulator of Ifitm3 Levels. Viruses, 15(10), 1993. https://doi.org/10.3390/v15101993

Kairouani, A., Pontier, D., Picart, C., Mounet, F., Martinez, Y., Le-Bot, L., Fanuel, M., Hammann, P., Belmudes, L., Merret, R., Azevedo, J., Carpentier, M.-C., Gagliardi, D., Couté, Y., Sibout, R., Bies-Etheve, N., & Lagrange, T. (2023). Cell-type-specific control of secondary cell wall formation by Musashi-type translational regulators in Arabidopsis. ELife, 12, RP88207. https://doi.org/10.7554/eLife.88207

Reynaud, A., Trzpil, W., Dartiguelongue, L., Çumaku, V., Fortin, T., Sansa, M., Hentz, S., & Masselon, C. (2023). Compact and modular system architecture for a nano-resonator-mass spectrometer. Frontiers in Chemistry, 11, 1238674. https://doi.org/10.3389/fchem.2023.1238674

Raisch, J., Dubois, M.-L., Groleau, M., Lévesque, D., Burger, T., Jurkovic, C.-M., Brailly, R., Marbach, G., McKenna, A., Barrette, C., Jacques, P.-É., & Boisvert, F.-M. (2023). Pulse-SILAC and Interactomics Reveal Distinct DDB1-CUL4-Associated Factors, Cellular Functions, and Protein Substrates. Molecular & Cellular Proteomics: MCP, 22(10), 100644. https://doi.org/10.1016/j.mcpro.2023.100644

Robert, V. J., Caron, M., Gely, L., Adrait, A., Pakulska, V., Couté, Y., Chevalier, M., Riedel, C. G., Bedet, C., & Palladino, F. (2023). SIN-3 acts in distinct complexes to regulate the germline transcriptional program in Caenorhabditis elegans. Development (Cambridge, England), 150(21), dev201755. https://doi.org/10.1242/dev.201755

Lavrut, P.-M., Guillaud, O., Dumortier, J., Mintz, E., Brun, V., Heissat, S., Couchonnal Bedoya, E., Lachaux, A., Bost, M., & Hervieu, V. (2023). Histological features of liver disease development in the Atp7b-/- mouse: a model of Wilson’s disease. Journal of Clinical Pathology, jcp-2023-209190. https://doi.org/10.1136/jcp-2023-209190

Zafirov, D., Giovinazzo, N., Lecampion, C., Field, B., Ducassou, J. N., Couté, Y., Browning, K. S., Robaglia, C., & Gallois, J.-L. (2023). Arabidopsis eIF4E1 protects the translational machinery during TuMV infection and restricts virus accumulation. PLoS Pathogens, 19(11), e1011417. https://doi.org/10.1371/journal.ppat.1011417

Huna, A., Flaman, J.-M., Lodillinsky, C., Zhu, K., Makulyte, G., Pakulska, V., Coute, Y., Ruisseaux, C., Saintigny, P., Hernandez-Vargas, H., Defossez, P.-A., Boissan, M., Martin, N., & Bernard, D. (2023). RSK3 switches cell fate: from stress-induced senescence to malignant progression. Journal of Experimental & Clinical Cancer Research: CR, 42(1), 318. https://doi.org/10.1186/s13046-023-02909-5