Defining the carrier proteome limit for single-cell proteomics von Cheung, Tommy K., Lee, Chien-Yun, Bayer, Florian P., McCoy, Atticus, Kuster, Bernhard, Rose, Christopher M.

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Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning von Gessulat, Siegfried, Schmidt, Tobias, Zolg, Daniel Paul, Samaras, Patroklos, Schnatbaum, Karsten, Zerweck, Johannes, Knaute, Tobias, Rechenberger, Julia, Delanghe, Bernard, Huhmer, Andreas, Reimer, Ulf, Ehrlich, Hans-Christian, Aiche, Stephan, Kuster, Bernhard, Wilhelm, Mathias

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Robust, reproducible and quantitative analysis of thousands of proteomes by micro-flow LC–MS/MS von Bian, Yangyang, Zheng, Runsheng, Bayer, Florian P., Wong, Cassandra, Chang, Yun-Chien, Meng, Chen, Zolg, Daniel P., Reinecke, Maria, Zecha, Jana, Wiechmann, Svenja, Heinzlmeir, Stephanie, Scherr, Johannes, Hemmer, Bernhard, Baynham, Mike, Gingras, Anne-Claude, Boychenko, Oleksandr, Kuster, Bernhard

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A Scalable Approach for Protein False Discovery Rate Estimation in Large Proteomic Data Sets[S] von Savitski, Mikhail M., Wilhelm, Mathias, Hahne, Hannes, Kuster, Bernhard, Bantscheff, Marcus

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Quantitative mass spectrometry in proteomics: critical review update from 2007 to the present von Bantscheff, Marcus, Lemeer, Simone, Savitski, Mikhail M., Kuster, Bernhard

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Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics von Wilhelm, Mathias, Zolg, Daniel P., Graber, Michael, Gessulat, Siegfried, Schmidt, Tobias, Schnatbaum, Karsten, Schwencke-Westphal, Celina, Seifert, Philipp, de Andrade Krätzig, Niklas, Zerweck, Johannes, Knaute, Tobias, Bräunlein, Eva, Samaras, Patroklos, Lautenbacher, Ludwig, Klaeger, Susan, Wenschuh, Holger, Rad, Roland, Delanghe, Bernard, Huhmer, Andreas, Carr, Steven A., Clauser, Karl R., Krackhardt, Angela M., Reimer, Ulf, Kuster, Bernhard

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Linking post-translational modifications and protein turnover by site-resolved protein turnover profiling von Zecha, Jana, Gabriel, Wassim, Spallek, Ria, Chang, Yun-Chien, Mergner, Julia, Wilhelm, Mathias, Bassermann, Florian, Kuster, Bernhard

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TMT Labeling for the Masses: A Robust and Cost-efficient, In-solution Labeling Approach[S] von Zecha, Jana, Satpathy, Shankha, Kanashova, Tamara, Avanessian, Shayan C., Kane, M. Harry, Clauser, Karl R., Mertins, Philipp, Carr, Steven A., Kuster, Bernhard

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Quantitative mass spectrometry in proteomics: a critical review von Bantscheff, Marcus, Schirle, Markus, Sweetman, Gavain, Rick, Jens, Kuster, Bernhard

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Dissecting the sequence determinants for dephosphorylation by the catalytic subunits of phosphatases PP1 and PP2A von Hoermann, Bernhard, Kokot, Thomas, Helm, Dominic, Heinzlmeir, Stephanie, Chojnacki, Jeremy E., Schubert, Thomas, Ludwig, Christina, Berteotti, Anna, Kurzawa, Nils, Kuster, Bernhard, Savitski, Mikhail M., Köhn, Maja

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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues von Wang, Dongxue, Eraslan, Basak, Wieland, Thomas, Hallström, Björn, Hopf, Thomas, Zolg, Daniel Paul, Zecha, Jana, Asplund, Anna, Li, Li‐hua, Meng, Chen, Frejno, Martin, Schmidt, Tobias, Schnatbaum, Karsten, Wilhelm, Mathias, Ponten, Frederik, Uhlen, Mathias, Gagneur, Julien, Hahne, Hannes, Kuster, Bernhard

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Stress-primed secretory autophagy promotes extracellular BDNF maturation by enhancing MMP9 secretion von Martinelli, Silvia, Anderzhanova, Elmira A., Bajaj, Thomas, Wiechmann, Svenja, Dethloff, Frederik, Weckmann, Katja, Heinz, Daniel E., Ebert, Tim, Hartmann, Jakob, Geiger, Thomas M., Döngi, Michael, Hafner, Kathrin, Pöhlmann, Max L., Jollans, Lee, Philipsen, Alexandra, Schmidt, Susanne V., Schmidt, Ulrike, Maccarrone, Giuseppina, Stein, Valentin, Hausch, Felix, Turck, Christoph W., Schmidt, Mathias V., Gellner, Anne-Kathrin, Kuster, Bernhard, Gassen, Nils C.

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Peptide Level Turnover Measurements Enable the Study of Proteoform Dynamics von Zecha, Jana, Meng, Chen, Zolg, Daniel Paul, Samaras, Patroklos, Wilhelm, Mathias, Kuster, Bernhard

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Lapatinib Resistance in Breast Cancer Cells Is Accompanied by Phosphorylation-Mediated Reprogramming of Glycolysis von Ruprecht, Benjamin, Zaal, Esther A, Zecha, Jana, Wu, Wei, Berkers, Celia R, Kuster, Bernhard, Lemeer, Simone

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Proteome activity landscapes of tumor cell lines determine drug responses von Frejno, Martin, Meng, Chen, Ruprecht, Benjamin, Oellerich, Thomas, Scheich, Sebastian, Kleigrewe, Karin, Drecoll, Enken, Samaras, Patroklos, Hogrebe, Alexander, Helm, Dominic, Mergner, Julia, Zecha, Jana, Heinzlmeir, Stephanie, Wilhelm, Mathias, Dorn, Julia, Kvasnicka, Hans-Michael, Serve, Hubert, Weichert, Wilko, Kuster, Bernhard

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Mass-spectrometry-based draft of the Arabidopsis proteome von Mergner, Julia, Frejno, Martin, List, Markus, Papacek, Michael, Chen, Xia, Chaudhary, Ajeet, Samaras, Patroklos, Richter, Sandra, Shikata, Hiromasa, Messerer, Maxim, Lang, Daniel, Altmann, Stefan, Cyprys, Philipp, Zolg, Daniel P., Mathieson, Toby, Bantscheff, Marcus, Hazarika, Rashmi R., Schmidt, Tobias, Dawid, Corinna, Dunkel, Andreas, Hofmann, Thomas, Sprunck, Stefanie, Falter-Braun, Pascal, Johannes, Frank, Mayer, Klaus F. X., Jürgens, Gerd, Wilhelm, Mathias, Baumbach, Jan, Grill, Erwin, Schneitz, Kay, Schwechheimer, Claus, Kuster, Bernhard

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A multivariate approach to the integration of multi-omics datasets von Meng, Chen, Kuster, Bernhard, Culhane, Aedín C, Gholami, Amin Moghaddas

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Mass-spectrometry-based draft of the human proteome von Wilhelm, Mathias, Schlegl, Judith, Hahne, Hannes, Gholami, Amin Moghaddas, Lieberenz, Marcus, Savitski, Mikhail M., Ziegler, Emanuel, Butzmann, Lars, Gessulat, Siegfried, Marx, Harald, Mathieson, Toby, Lemeer, Simone, Schnatbaum, Karsten, Reimer, Ulf, Wenschuh, Holger, Mollenhauer, Martin, Slotta-Huspenina, Julia, Boese, Joos-Hendrik, Bantscheff, Marcus, Gerstmair, Anja, Faerber, Franz, Kuster, Bernhard

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Tracking cancer drugs in living cells by thermal profiling of the proteome von Savitski, Mikhail M., Reinhard, Friedrich B. M., Franken, Holger, Werner, Thilo, Savitski, Maria Fälth, Eberhard, Dirk, Molina, Daniel Martinez, Jafari, Rozbeh, Dovega, Rebecca Bakszt, Klaeger, Susan, Kuster, Bernhard, Nordlund, Pär, Bantscheff, Marcus, Drewes, Gerard

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Meltome atlas—thermal proteome stability across the tree of life von Jarzab, Anna, Kurzawa, Nils, Hopf, Thomas, Moerch, Matthias, Zecha, Jana, Leijten, Niels, Bian, Yangyang, Musiol, Eva, Maschberger, Melanie, Stoehr, Gabriele, Becher, Isabelle, Daly, Charlotte, Samaras, Patroklos, Mergner, Julia, Spanier, Britta, Angelov, Angel, Werner, Thilo, Bantscheff, Marcus, Wilhelm, Mathias, Klingenspor, Martin, Lemeer, Simone, Liebl, Wolfgang, Hahne, Hannes, Savitski, Mikhail M., Kuster, Bernhard

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