Publications

101.

Journal Article

Fang, P.; Ji, Y.; Oellerich, T.; Urlaub, H.; Pan, K.-T.: Strategies for Proteome-Wide Quantification of Glycosylation Macro- and Micro-Heterogeneity. International Journal of Molecular Sciences 23 (3), 1609 (2022)

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102.

Journal Article

Wilke, A. C.; Doebele, C.; Zindel, A.; Lee, K. S.; Rieke, S. A.; Ceribelli, M.; Comoglio, F.; Phelan, J.D.; Wang, J. Q.; Pikman, Y. et al.; Jahn, D.; Häupl, B.; Schneider, C.; Scheich, S.; Tosto, F. A.; Bohnenberger, H.; Stauder, P.; Schnütgen, F.; Slabicki, M.; Coulibaly, Z. A.; Wolf, S.; Bojarczuk, K.; Chapuy, B.; Brandts, C. H.; Stroebel, P.; Lewis, C. A.; Engelke, M.; Xu, X.; Kim, H.; Dang, T. H.; Schmitz, R.; Hodson, D. J.; Stegmaier, K.; Urlaub, H.; Serve, H.; Schmitt, C. A.; Kreuz, F.; Knittel, G.; Rabinowitz, J. D.; Reinhardt, H. C.; Vander Heiden, M. G.; Thomas, C.; Staudt, L. M.; Zenz, T.; Oellerich, T.: SHMT2 inhibition disrupts the TCF3 transcriptional survival program in Burkitt lymphoma. Blood 139 (4), pp. 538 - 553 (2022)

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103.

Journal Article

Elakad, O.; Häupl, B.; Labitzky, V.; Yao, S.; Küffer, S.; von Hammerstein-Equord, A.; Danner, B. C.; Jücker, M.; Urlaub, H.; Lange, T. et al.; Ströbel, P.; Oellerich, T.; Bohnenberger, H.: Activation of CD44/PAK1/AKT signaling promotes resistance to FGFR1 inhibition in squamous-cell lung cancer. npj Precision Oncology 6, 52 (2022)

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104.

Journal Article

Farkas, Á.; Urlaub, H.; Bohnsack, K. E.; Schwappach, B.: Regulated targeting of the monotopic hairpin membrane protein Erg1 requires the GET pathway. Journal of Cell Biology 221 (6), e202201036 (2022)

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105.

Journal Article

Heidemann, J. L.; Neumann, P.; Krüger, L.; Wicke, D.; Vinhoven, L.; Linden, A.; Dickmanns, A.; Stülke, J.; Urlaub, H.; Ficner, R.: Structural basis for c-di-AMP–dependent regulation of the bacterial stringent response by receptor protein DarB. Journal of Biological Chemistry 298 (7), 102144 (2022)

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106.

Journal Article

Jayavelu, A. K.; Wolf, S.; Buettner, F.; Alexe, G.; Häupl, B.; Comoglio, F.; Schneider, C.; Doebele, C.; Fuhrmann, D. C.; Wagner, S. et al.; Donato, E.; Andresen, C.; Wilke, A. C.; Zindel, A.; Jahn, D.; Splettstoesser, B.; Plessmann, U.; Münch, S.; Abou-El-Ardat, K.; Makowka, P.; Acker, F.; Enssle, J. C.; Cremer, A.; Schnütgen, F.; Kurrle, N.; Chapuy, B.; Löber, J.; Hartmann, S.; Wild, P. J.; Wittig, I.; Hübschmann, D.; Kaderali, L.; Cox, J.; Brüne, B.; Röllig, C.; Thiede, C.; Steffen, B.; Bornhäuser, M.; Trumpp, A.; Urlaub, H.; Stegmaier, K.; Serve, H.; Mann, M.; Oellerich, T.: The proteogenomic subtypes of acute myeloid leukemia. Cancer Cell 40 (3), pp. 301 - 317.e12 (2022)

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107.

Journal Article

Meyer, A.; Kehl, A.; Cui, C.; Reichardt, F. A. K.; Hecker, F.; Funk, L.-M.; Ghosh, M. K.; Pan, K. T.; Urlaub, H.; Tittmann, K. et al.; Stubbe, J.; Bennati, M.: 19F Electron-nuclear double resonance reveals interaction between redox-active tyrosines across the α/β interface of E. coli ribonucleotide reductase. Journal of the American Chemical Society 144, pp. 11270 - 11282 (2022)

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108.

Journal Article

Moll, A.; Ramirez, L. M.; Ninov, M.; Schwarz, J.; Urlaub, H.; Zweckstetter, M.: Hsp multichaperone complex buffers pathologically modified Tau. Nature Communications 13, 3668 (2022)

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109.

Journal Article

Richter, A.; Fichtner, A.; Joost, J.; Brockmeyer, P.; Kauffmann, P.; Schliephake, H.; Hammerstein‐Equord, A.; Kueffer, S.; Urlaub, H.; Oellerich, T. et al.; Ströbel, P.; Bohnenberger, H.; Bremmer, F.: Quantitative proteomics identifies biomarkers to distinguish pulmonary from head and neck squamous cell carcinomas by immunohistochemistry. The Journal of Pathology: Clinical Research 8 (1), pp. 33 - 47 (2022)

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110.

Journal Article

Richter, A.; Fichtner, A.; Joost, J.; Brockmeyer, P.; Kauffmann, P.; Schliephake, H.; Hammerstein‐Equord, A.; Kueffer, S.; Urlaub, H.; Oellerich, T. et al.; Ströbel, P.; Bohnenberger, H.; Bremmer, F.: Quantitative proteomics identifies biomarkers to distinguish pulmonary from head and neck squamous cell carcinomas by immunohistochemistry. The Journal of Pathology: Clinical Research 8 (1), pp. 33 - 47 (2022)

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111.

Journal Article

Weninger, G.; Pochechueva, T.; El Chami, D.; Luo, X.; Kohl, T.; Brandenburg, S.; Urlaub, H.; Guan, K.; Lenz, C.; Lehnart, S. E.: Calpain cleavage of Junctophilin-2 generates a spectrum of calcium-dependent cleavage products and DNA-rich NT1-fragment domains in cardiomyocytes. Scientific Reports 12, 10387 (2022)

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112.

Journal Article

Barbarics, B.; Eildermann, K.; Kaderali, L.; Cyganek, L.; Plessmann, U.; Bodemeyer, J.; Paul, T.; Ströbel, P.; Urlaub, H.; Tirilomis, T. et al.; Lenz, C.; Bohnenberger, H.: Proteomic mapping of atrial and ventricular heart tissue in patients with aortic valve stenosis. Scientific Reports 11, 24389 (2021)

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113.

Journal Article

James, C.; Lenz, C.; Urlaub, H.; Kehlenbach, R. H.: Sequestosome 1 is part of the interaction network of VAPB. International Journal of Molecular Sciences 22 (24), 13271 (2021)

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114.

Journal Article

Mühlhausen, S.; Schmitt, H. D.; Plessmann, U.; Mienkus, P.; Sternisek, P.; Perl, T.; Weig, M.; Urlaub, H.; Bader, O.; Kollmar, M.: Proteogenomics analysis of CUG codon translation in the human pathogen Candida albicans. BMC Biology 19, 258 (2021)

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115.

Journal Article

Güran, A.; Ji, Y.; Fang, P.; Pan, K.-T.; Urlaub, H.; Avkiran, M.; Lenz, C.: Quantitative analysis of the cardiac phosphoproteome in response to acute β-adrenergic receptor stimulation in vivo. International Journal of Molecular Sciences 22 (22), 12584 (2021)

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116.

Journal Article

Fianu, I.; Chen, Y.; Dienemann, C.; Dybkov, O.; Linden, A.; Urlaub, H.; Cramer, P.: Structural basis of Integrator-mediated transcription regulation. Science 374 (6569), pp. 883 - 887 (2021)

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117.

Journal Article

Cruz-Zaragoza, L. D.; Dennerlein, S.; Linden, A.; Yousefi, R.; Lavdovskaia, E.; Aich, A.; Falk, R. R.; Gomkale, R.; Schöndorf, T.; Bohnsack, M. T. et al.; Richter-Dennerlein, R.; Urlaub, H.; Rehling, P.: An in vitro system to silence mitochondrial gene expression. Cell 184 (23), pp. 5824 - 5837.e15 (2021)

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118.

Journal Article

Aquino, G. R. R.; Hackert, P.; Krogh, N.; Pan, K. T.; Jaafar, M.; Henras, A. K.; Nielsen, H.; Urlaub, H.; Bohnsack, K. E.; Bohnsack, M. T.: The RNA helicase Dbp7 promotes domain V/VI compaction and stabilization of inter-domain interactions during early 60S assembly. Nature Communications 12, 6152 (2021)

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119.

Journal Article

Kokic, G.; Wagner, F. R.; Chernev, A.; Urlaub, H.; Cramer, P.: Structural basis of human transcription–DNA repair coupling. Nature 598 (7880), pp. 368 - 372 (2021)

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120.

Journal Article

Gomkale, R.; Linden, A.; Neumann, P.; Schendzielorz, A. B.; Stoldt, S.; Dybkov, O.; Kilisch, M.; Schulz, C.; Cruz-Zaragoza, L. D.; Schwappach, B. et al.; Ficner, R.; Jakobs, S.; Urlaub, H.; Rehling, P.: Mapping protein interactions in the active TOM-TIM23 supercomplex. Nature Communications 12, 5715 (2021)

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121.

Journal Article

Zhang, Z.; Rigo, N.; Dybkov, O.; Fourmann, J. B.; Will, C. L.; Kumar, V.; Urlaub, H.; Stark, H.; Lührmann, R.: Structural insights into how Prp5 proofreads the pre-mRNA branch site. Nature 596 (7871), pp. 296 - 300 (2021)

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122.

Journal Article

Helm, M. S.; Dankovich, T. M.; Mandad, S.; Rammner, B.; Jähne, S.; Salimi, V.; Koerbs, C.; Leibrandt, R.; Urlaub, H.; Schikorski, T. et al.; Rizzoli, S. O.: A large-scale nanoscopy and biochemistry analysis of postsynaptic dendritic spines. Nature Neuroscience 24 (8), pp. 1151 - 1162 (2021)

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123.

Journal Article

Grass, L. M.; Wollenhaupt, J.; Barthel, T.; Parfentev, I.; Urlaub, H.; Loll, B.; Klauck, E.; Antelmann, H.; Wahl, M. C.: Large-scale ratcheting in a bacterial DEAH/RHA-type RNA helicase that modulates antibiotics susceptibility. Proceedings of the National Academy of Sciences of the USA 118 (30), e2100370118 (2021)

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124.

Journal Article

Chen, Y.; Vos, S. M.; Dienemann, C.; Ninov, M.; Urlaub, H.; Cramer, P.: Allosteric transcription stimulation by RNA polymerase II super elongation complex. Molecular Cell 81 (16), pp. 3386 - 3399.e10 (2021)

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125.

Journal Article

Mishto, M.; Rodriguez-Hernandez, G.; Neefjes, J.; Urlaub, H.; Liepe, J.: Response: Commentary: An In Silico–In Vitro Pipeline Identifying an HLA-A*02:01+ KRAS G12V+ Spliced Epitope Candidate for a Broad Tumor-Immune Response in Cancer Patients. Frontiers in immunology 12, 679836 (2021)

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126.

Journal Article

Fang, P.; Ji , Y.; Silbern, I.; Viner, R.; Oellerich, T.; Pan, K. T.; Urlaub, H.: Evaluation and optimization of high-field asymmetric waveform ion-mobility spectrometry for multiplexed quantitative site-specific N-glycoproteomics. Analytical Chemistry 93 (25), pp. 8846 - 8855 (2021)

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127.

Journal Article

Martinez Hernandez, A.; Silbern, I.; Geffers, I.; Tatenhorst, L.; Becker, S.; Urlaub, H.; Zweckstetter, M.; Griesinger, C.; Eichele, G.: Low-Expressing synucleinopathy mouse models based on oligomer-forming mutations and C-terminal truncation of α-synuclein. Frontiers in Neuroscience 15, 643391 (2021)

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128.

Journal Article

Hillen, H. S.; Lavdovskaia, E.; Nadler, F.; Hanitsch, E.; Linden, A.; Bohnsack, K. E.; Urlaub, H.; Richter-Dennerlein, R.: Structural basis of GTPase-mediated mitochondrial ribosome biogenesis and recycling. Nature Communications 12, 3672 (2021)

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129.

Journal Article

Yildirim, A.; Mozaffari-Jovin, S.; Wallisch, A. K.; Schäfer, J.; Ludwig, S. E. J.; Urlaub, H.; Lührmann, R.; Wolfrum, U.: SANS (USH1G) regulates pre-mRNA splicing by mediating the intra-nuclear transfer of tri-snRNP complexes. Nucleic Acids Research 49 (10), pp. 5845 - 5866 (2021)

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130.

Journal Article

Osman, S.; Mohammad, E.; Lidschreiber, M.; Stuetzer, A.; Bazsó, F. L.; Maier, K. C.; Urlaub, H.; Cramer, P.: The Cdk8 kinase module regulates interaction of the mediator complex with RNA polymerase II. Journal of Biological Chemistry 296, 100734 (2021)

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131.

Journal Article

Wensien, M.; Rabe von Pappenheim, F.; Funk, L. M.; Kloskowski, P.; Curth, U.; Diederichsen, U.; Uranga, J.; Ye, J.; Fang, P.; Pan, K. T. et al.; Urlaub, H.; Mata, R. A.; Sautner, V.; Tittmann, K.: A lysine–cysteine redox switch with an NOS bridge regulates enzyme function. Nature 593 (7859), pp. 460 - 464 (2021)

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132.

Journal Article

Hallumi, E.; Shalah, R.; Lo, W. L.; Corso, J.; Oz, I.; Beach, D.; Wittman, S.; Isenberg, A.; Sela, M.; Urlaub, H. et al.; Weiss, A.; Yablonski, D.: Itk promotes the integration of TCR and CD28 costimulation through its direct substrates SLP-76 and Gads. The Journal of Immunology 206 (10), pp. 2322 - 2337 (2021)

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133.

Journal Article

Naarman-de Vries, I. S.; Senatore, R.; Moritz, B.; Marx, G.; Urlaub, H.; Niessing, D.; Ostareck, D. H.; Ostareck-Lederer, A.: Methylated HNRNPK acts on RPS19 to regulate ALOX15 synthesis in erythropoiesis. Nucleic Acids Research 49 (6), pp. 3507 - 3523 (2021)

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134.

Journal Article

Wohlgemuth, I.; Garofalo, R.; Samatova, E. N.; Günenç, A. N.; Lenz, C.; Urlaub, H.; Rodnina, M. V.: Translation error clusters induced by aminoglycoside antibiotics. Nature Communications 12, 1830 (2021)

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135.

Journal Article

Peper, J.; Kownatzki-Danger, D.l.; Weninger, G.; Seibertz, F.; Pronto, J. R. D.; Sutanto, H.; Pacheu-Grau, D.; Hindmarsh, R.; Brandenburg, S.; Kohl, T. et al.; Hasenfuss, G.; Gotthardt, M.; Rog-Zielinska, E. A.; Wollnik, B.; Rehling, P.; Urlaub, H.; Wegener, J.; Heijman, J.; Voigt, N.; Cyganek, L.; Lenz, C.; Lehnart, S. E.: Caveolin3 stabilizes McT1-mediated lactate/proton transport in cardiomyocytes. Circulation Research 128 (6), pp. e102 - e120 (2021)

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136.

Journal Article

Barysch, S. V.; Stankovic‐Valentin, N.; Miedema, K.-T.; Karaca, S.; Doppel, J.; Nait Achour, T.; Vasudeva, A.; Wolf, L.; Sticht, C.; Urlaub, H. et al.; Melchior, F.: Transient deSUMOylation of IRF2BP proteins controls early transcription in EGFR signaling. EMBO Reports 22 (3), e49651 (2021)

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137.

Journal Article

Yatsenko, A. S.; Kucherenko, M. M.; Xie, Y.; Urlaub, H.; Shcherbata, H. R.: Exocyst-mediated membrane trafficking of the lissencephaly-associated ECM receptor dystroglycan is required for proper brain compartmentalization. eLife 10, e63868 (2021)

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138.

Journal Article

Szczęśniak, P.; Henke, T.; Fröhlich, S.; Plessmann, U.; Urlaub, H.; Leng, L.; Bucala, R.; Grosse, R.; Meinhardt, A.; Klug, J.: Extracellular MIF, but not its homologue D-DT, promotes fibroblast motility independent of its receptor CD74/CD44. Journal of Cell Science 134 (3), jcs217356 (2021)

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139.

Journal Article

Zheng, X.; Zhang, L.; Kuang, Y.; Venkataramani, V.; Jin, F.; Hein, K.; Zafeiriou, M. P.; Lenz, C.; Moebius, W.; Kilic, E. et al.; Hermann, D. M.; Weber, M. S.; Urlaub, H.; Zimmermann, W.-H.; Bähr, M.; Doeppner, T. R.: Extracellular vesicles derived from neural progenitor cells: A preclinical evaluation for stroke treatment in mice. Translational Stroke Research 12 (1), pp. 185 - 203 (2021)

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140.

Journal Article

Valpadashi, A.; Callegari, S.; Linden, A.; Neumann, P.; Ficner, R.; Urlaub, H.; Deckers, M.; Rehling, P.: Defining the architecture of the human TIM22 complex by chemical crosslinking. FEBS Letters 595 (2), pp. 157 - 168 (2021)

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141.

Journal Article

Kraxner, J.; Lorenz, C.; Menzel, J.; Parfentev, I.; Silbern, I.; Denz, M.; Urlaub, H.; Schwappach, B.; Köster, S.: Post-translational modifications soften vimentin intermediate filaments. Nanoscale 13 (1), pp. 380 - 387 (2021)

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142.

Journal Article

Blersch, K. F.; Burchert, J.-P.; August, S.-C.; Welp, L.; Neumann, P.; Köster, S.; Urlaub, H.; Ficner, R.: Structural model of the M7G46 methyltransferase TrmB in complex with tRNA. RNA Biology 18 (12), pp. 2466 - 2479 (2021)

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143.

Journal Article

Sievers, K.; Welp, L.; Urlaub, H.; Ficner, R.: Structural and functional insights into human tRNA guanine transgylcosylase. RNA Biology 18 (Suppl. 1), pp. 382 - 396 (2021)

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144.

Journal Article

Silbern, I.; Pan, K. T.; Fiosins, M.; Bonn, S.; Rizzoli, S. O.; Fornasiero, E. F.; Urlaub, H.; Jahn, R.: Protein phosphorylation in depolarized synaptosomes: Dissecting primary effects of calcium from synaptic vesicle cycling. Molecular and Cellular Proteomics 20, 100061 (2021)

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145.

Journal Article

Townsend, C.; Leelaram, M. N.; Agafonov, D. E.; Dybkov, O.; Will, C. L.; Bertram, K.; Urlaub, H.; Kastner, B.; Stark, H.; Lührmann, R.: Mechanism of protein-guided folding of the active site U2/U6 RNA during spliceosome activation. Science 370 (6523), eabc3753 (2020)

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146.

Journal Article

Lavdovskaia, E.; Denks, K.; Nadler, F.; Steube, E.; Linden, A.; Urlaub, H.; Rodnina, M. V.; Richter-Dennerlein, R.: Dual function of GTPBP6 in biogenesis and recycling of human mitochondrial ribosomes. Nucleic Acids Research 48 (22), pp. 12929 - 12942 (2020)

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147.

Journal Article

Netz, E.; Dijkstra, T. M. H.; Sachsenberg, T.; Zimmermann, L.; Walzer, M.; Monecke, T.; Ficner, R.; Dybkov, O.; Urlaub, H.; Kohlbacher, O.: OpenPepXL: An open-source tool for sensitive identification of cross-linked peptides in XL-MS. Molecular and Cellular Proteomics 19 (12), pp. 2157 - 2167 (2020)

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148.

Journal Article

Leitner, A.; Bonvin, A. M. J. J.; Borchers, C. H.; Chalkley, R. J.; Chamot-Rooke, J.; Combe, C. W.; Cox, J.; Dong, M.-Q.; Fischer, L.; Götze, M. et al.; Gozzo, F. C.; Heck, A. J. R.; Hoopmann, M. R.; Huang, L.; Ishihama, Y.; Jones, A. R.; Kalisman, N.; Kohlbacher, O.; Mechtler, K.; Moritz, R. L.; Netz, E.; Novak, P.; Petrotchenko, E.; Sali, A.; Scheltema, R. A.; Schmidt, C.; Schriemer, D.; Sinz, A.; Sobott, F.; Stengel, F.; Thalassinos, K.; Urlaub, H.; Viner, R.; Vizcaíno, J. A.; Wilkins, M. R.; Rappsilber, J.: Toward increased reliability, transparency, and accessibility in cross-linking mass spectrometry. Structure 28 (11), pp. 1259 - 1268 (2020)

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149.

Journal Article

Fish, K.; Comoglio, F.; Shaffer, A. L.; Jia, Y.; Pan, K. T.; Scheich, S.; Oellerich, A.; Doebele, C.; Ikeda, M.; Schaller, S. J. et al.; Nguyen, H.; Muppidi, J.; Wright, G. W.; Urlaub, H.; Serve, H.; Staudtd, L. M.; Longnecker, R.; Oellerich, T.: Rewiring of B cell receptor signaling by Epstein–Barr virus LMP2A. Proceedings of the National Academy of Sciences of the USA 117 (42), pp. 26318 - 26327 (2020)

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150.

Journal Article

Liess, A. K. L.; Kucerova, A.; Schweimer, K.; Schlesinger, D.; Dybkov, O.; Urlaub, H.; Mansfeld, J.; Lorenz, S.: Dimerization regulates the human APC/C-associated ubiquitin-conjugating enzyme UBE2S. Science Signaling 13 (654), eaba8208 (2020)

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Journal Article (505)