Publications

Journal Article (270)

1.
Journal Article
Lykke-Andersen, S.; Zumer, K.; Molska, E. Š.; Rouvière, J. O.; Wu, G.; Demel, C.; Schwalb, B.; Schmid, M.; Cramer, P.; Jensen, T. H.: Integrator is a genome-wide attenuator of non-productive transcription. Molecular Cell, in Press (2020)
2.
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Bonekamp, N. A.; Peter, B.; Hillen, H. S.; Felser, A.; Bergbrede, T.; Choidas, A.; Horn, M.; Unger, A.; Di Lucrezia, R.; Atanassov, I. et al.; Li, X.; Koch, U.; Menninger, S.; Boros, J.; Habenberger, P.; Giavalisco, P.; Cramer, P.; Denzel, M. S.; Nussbaumer, P.; Klebl, B.; Falkenberg, M.; Gustafsson, C. M.; Larsson, N.-G.: Small-molecule inhibitors of human mitochondrial DNA transcription. Nature 588 (7839), pp. 712 - 716 (2020)
3.
Journal Article
Frühbeis, C.; Kuo-Elsner, W. P.; Müller, C.; Barth, K.; Peris, L.; Tenzer, S.; Möbius, W.; Werner, H. B.; Nave, K.-A.; Fröhlich, D. et al.; Krämer-Albers, E.-M.: Oligodendrocytes support axonal transport and maintenance via exosome secretion. PLoS Biology 18, e3000621 (2020)
4.
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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)
5.
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)
6.
Journal Article
Bubnis, G.; Grubmüller, H.: Sequential water and headgroup merger: Membrane poration paths and energetics from MD simulations. Biophysical Journal 119 (12), pp. 2418 - 2430 (2020)
7.
Journal Article
Gabler, F.; Nam, S.-Z.; Till, S.; Mirdita, M.; Steinegger, M.; Söding, J.; Lupas, A. N.; Alva, V.: Protein sequence analysis using the MPI Bioinformatics Toolkit. Current Protocols in Bioinformatics 72 (1), e108 (2020)
8.
Journal Article
Bucevicius, J.; Gilat, T.; Lukinavicius, G.: Far-red switching DNA probes for live cell nanoscopy. Chemical Communications 56 (94), pp. 14797 - 14800 (2020)
9.
Journal Article
Wille, S.; Jiang, H.; Bünermann, O.; Wodtke, A. M.; Behler, J.; Kandratsenka, A.: An experimentally validated neural-network potential energy surface for H-atom on free-standing graphene in full dimensionality. Physical Chemistry Chemical Physics 22 (45), pp. 26113 - 26120 (2020)
10.
Journal Article
Kolar, M. H.; Bock, L. V.; Grubmüller, H.: Atomistic simulations of the human proteasome inhibited by a covalent ligand. arXiv, 2012.03387 (2020)
11.
Journal Article
Chongtham, M. C.; Wang, H.; Thaller, C.; Hsiao, N. H.; Vachkov, I. H.; Pavlov, S. P.; Williamson, L. H.; Yamashima, T.; Stoykova, A.; Yan, J. et al.; Eichele, G.; Tonchev, A. B.: Transcriptome response and spatial pattern of gene expression in the primate subventricular zone neurogenic niche after cerebral ischemia. Frontiers in Cell and Developmental Biology 8, 584314 (2020)
12.
Journal Article
Savastano, A.; Jaipuria, G.; Andreas, L. B.; Mandelkow, E.; Zweckstetter, M.: Solid-state NMR investigation of the involvement of the P2 region in tau amyloid fibrils. Scientific Reports 10, 21210 (2020)
13.
Journal Article
Lapolla, A.; Hartich, D.; Godec, A.: Spectral theory of fluctuations in time-average statistical mechanics of reversible and driven systems. Physical Review Research 2 (4), 043084 (2020)
14.
Journal Article
Lott, A.; Oroz, J.; Zweckstetter, M.: Molecular basis of the interaction of Hsp90 with its co‐chaperone Hop. Protein Science 29 (12), pp. 2422 - 2432 (2020)
15.
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)
16.
Journal Article
Wang, K.; Dahan, R.; Nehemia, S.; Reinhardt, O.; Tsesses, S.; Kaminer, I.; Kfir, O.; Lourenço-Martins, H.; Feist, A.; Ropers, C. et al.; Kippenberg, T. J.: Toward quantum optics with free electrons. Optics and Photonics News 31 (12), p. 35 (2020)
17.
Journal Article
Favretto, F.; Flores, D.; Baker, J. D.; Strohäker, T.; Andreas, L. B.; Blair, L. J.; Becker, S.; Zweckstetter, M.: Catalysis of proline isomerization and molecular chaperone activity in a tug-of-war. Nature Communications 11, 6046 (2020)
18.
Journal Article
Savastano, A.; Ibanez de Opakua, A.; Rankovic, M.; Zweckstetter, M.: Nucleocapsid protein of SARS-CoV-2 phase separates into RNA-rich polymerase-containing condensates. Nature Communications 11, 6041 (2020)
19.
Journal Article
Lapolla, A.; Godec, A.: Single-file diffusion in a bi-stable potential: Signatures of memory in the barrier-crossing of a tagged-particle. The Journal of Chemical Physics 153 (19), 194104 (2020)
20.
Journal Article
Borodin, D.; Golibrzuch, K.; Schwarzer, M.; Fingerhut, J.; Skoulatakis, G.; Schwarzer, D.; Seelemann, T.; Wodtke, A. M.: Measuring transient reaction rates from nonstationary catalysts. ACS Catalysis 10 (23), pp. 14056 - 14066 (2020)
21.
Journal Article
Trevisiol, A.; Kusch, K.; Steyer, A. M.; Gregor, I.; Nardis, C.; Winkler, U.; Köhler, S.; Restrepo, A.; Möbius, W.; Werner, H. B. et al.; Nave, K.-A.; Hirrlinger, J.: Structural myelin defects are associated with low axonal ATP levels but rapid recovery from energy deprivation in a mouse model of spastic paraplegia. PLoS Biology 18 (11), e3000943 (2020)
22.
Journal Article
Feist, A.; Yalunin, S.V.; Schäfer, S.; Ropers, C.: High-purity free-electron momentum states prepared by three-dimensional optical phase modulation. Physical Review Research 2 (4), 043227 (2020)
23.
Journal Article
Kohnke, B.; Kutzner, C.; Grubmüller, H.: A GPU-accelerated fast multipole method for GROMACS: Performance and accuracy. Journal of Chemical Theory and Computation 16 (11), pp. 6938 - 6949 (2020)
24.
Journal Article
Yip, K. M.; Fischer, N.; Paknia, E.; Chari, A.; Stark, H.: Atomic-resolution protein structure determination by cryo-EM. Nature 587 (7832), pp. 157 - 161 (2020)
25.
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)
26.
Journal Article
Rabe von Pappenheim, F.; Aldeghi, M.; Shome, B.; Begley, T.; de Groot, B. L.; Tittmann, K.: Structural basis for antibiotic action of the B1 antivitamin 2′-methoxy-thiamine. Nature Chemical Biology 16 (11), p. 1237-1245 (2020)
27.
Journal Article
Maier, I. L.; Hofer, S.; Eggert, E.; Schregel, K.; Psychogios, M. N.; Frahm, J.; Bähr, M.; Liman, J.: T1 Mapping Quantifies Spinal Cord Compression in Patients With Various Degrees of Cervical Spinal Canal Stenosis. Frontiers in Neurology 11 (2020)
28.
Journal Article
Moore, S.; Meschkat, M.; Ruhwedel, T.; Trevisiol, A.; Tzvetanova, I.; Battefeld, A.; Kusch, K.; Kole, M. H. P.; Strenzke, N.; Möbius, W. et al.; de Hoz, L.; Nave, K.-A.: A role of oligodendrocytes in information processing. Nature Communications 11 (1), 5497 (2020)
29.
Journal Article
Ramos Gomes, F.; Ferreira, N.; Kraupner, A.; Alves, F.; Markus, A.: Ex vivo Live Cell Imaging of Nanoparticle-Cell Interactions in the Mouse Lung. Frontiers in Bioengineering and Biotechnology 8 (2020)
30.
Journal Article
Ruhlandt, D.; Andresen, M.; Jensen, N. A.; Gregor, I.; Jakobs, S.; Enderlein, J.; Chizhik, A. I.: Absolute quantum yield measurements of fluorescent proteins using a plasmonic nanocavity. Communications Biology 3, 627 (2020)
31.
Journal Article
Geweke, J.; Wodtke, A. M.: Vibrationally inelastic scattering of HCl from Ag(111). Journal of Chemical Physics 153 (16), 164703 (2020)
32.
Journal Article
Liutkute, M.; Maiti, M.; Samatova, E. N.; Enderlein, J.; Rodnina, M. V.: Gradual compaction of nascent peptide during cotranslational folding on the ribosome. eLife 9, e60895 (2020)
33.
Journal Article
Gozes, I.; Nalivaeva, N. N.; Hirrlinger, J.; Blumrich, E.-M.; Turner, A. J.: Molecular Mechanisms of Cognitive Impairment and Intellectual Disability—Virtual ESN Mini-Conference in Conjunction with the FENS Forum, July 11–15, 2020. Journal of Molecular Neuroscience (2020)
34.
Journal Article
Silva, S.; Almeida, N.; Cunha, C.; Joseph, A. A.; Frahm, J.; Teixeira, A.: Data-Driven Critical Tract Variable Determination for European Portuguese. Information 11, p. 491 (2020)
35.
Journal Article
Wu, S.; Stone, S.; Nave, K.-A.; Lin, W.: The integrated UPR and ERAD in oligodendrocytes maintains myelin thickness in adults by regulating myelin protein translation. The Journal of Neuroscience 40 (43), pp. 8214 - 8232 (2020)
36.
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)
37.
Journal Article
Gibhardt, C. S.; Cappello, S.; Bhardwaj, R.; Schober, R.; Kirsch, S. A.; Bonilla del Rio, Z.; Gahbauer, S.; Bochicchio, A.; Sumanska, M.; Ickes, C. et al.; Stejerean-Todoran, I.; Mitkovski, M.; Alansary, D.; Zhang, X.; Revazian, A.; Fahrner, M.; Lunz, V.; Frischauf, I.; Luo, T.; Ezerina, D.; Messens, J.; Belousov, V. V.; Hoth, M.; Böckmann, R. A.; Hediger, M. A.; Schindl, R.; Bogeski, I.: Oxidative Stress-Induced STIM2 Cysteine Modifications Suppress Store-Operated Calcium Entry. Cell Reports 33 (3), 108292 (2020)
38.
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)
39.
Journal Article
Lau, J. A.; Schönemann, A.-M.; Schwarzer, D.; Wodtke, A. M.: The coverage dependence of the infrared absorption of CO adsorbed to NaCI(100). The Journal of Chemical Physics 153 (15), 154703 (2020)
40.
Journal Article
Stützer, A.; Welp, L.; Raabe, M.; Sachsenberg, T.; Kappert, C.; Wulf, A.; Lau, A. M.; David, S.-S.; Chernev, A.; Kramer, K. et al.; Politis, A.; Kohlbacher, O.; Fischle, W.; Urlaub, H.: Analysis of protein-DNA interactions in chromatin by UV induced cross-linking and mass spectrometry. Nature Communications 11, 5250 (2020)
41.
Journal Article
Grabner, C.; Moser, T.: The mammalian rod synaptic ribbon is essential for Cav channel facilitation and ultrafast fusion of the readily releasable pool of vesicles. bioRxiv, 336503 (2020)
42.
Journal Article
Vaes, J. E. G.; Kammen, C. M.; Trayford, C.; Toorn, A.; Ruhwedel, T.; Benders, M. J. N. L.; Dijkhuizen, R. M.; Möbius, W.; Rijt, S. H.; Nijboer, C. H.: Intranasal mesenchymal stem cell therapy to boost myelination after encephalopathy of prematurity. Glia, glia.23919 (2020)
43.
Journal Article
Vaes, J. E. G.; Kammen, C. M.; Trayford, C.; Toorn, A.; Ruhwedel, T.; Benders, M. J. N. L.; Dijkhuizen, R. M.; Möbius, W.; Rijt, S. H.; Nijboer, C. H.: Intranasal mesenchymal stem cell therapy to boost myelination after encephalopathy of prematurity. Glia, glia.23919 (2020)
44.
Journal Article
Osman, S.; Cramer, P.: Structural biology of RNA polymerase II transcription: 20 years on. Annual Review of Cell and Developmental Biology 36, pp. 1 - 34 (2020)
45.
Journal Article
Lange, F.; Agüi-Gonzalez, P.; Riedel, D.; Phan, N. T. N.; Jakobs, S.; Rizzoli, S. O.: Correlative fluorescence microscopy, transmission electron microscopy and secondary ion mass spectrometry (CLEM-SIMS) for cellular imaging. bioRxiv, 10.1101/2020.10.05.326074 (2020)
46.
Journal Article
Bertram, K.; El Ayoubi, L.; Dybkov, O.; Agafonov, D.; Will, C. L.; Hartmuth, K.; Urlaub, H.; Kastner, B.; Stark, H.; Lührmann, R.: Structural insights into the roles of metazoan-specific splicing factors in the human step 1 spliceosome. Molecular Cell 80 (1), pp. 127 - 139.e6 (2020)
47.
Journal Article
Brebner, L. S.; Ziminski, J. J.; Margetts‐Smith, G.; Sieburg, M. C.; Hall, C. N.; Heintz, T. G.; Lagnado, L.; Hirrlinger, J.; Crombag, H. S.; Koya, E.: Extinction of cue‐evoked food‐seeking recruits a GABAergic interneuron ensemble in the dorsal medial prefrontal cortex of mice. European Journal of Neuroscience 52 (7), pp. 3723 - 3737 (2020)
48.
Journal Article
Prukop, T.; Wernick, S.; Boussicault, L.; Ewers, D.; Jäger, K.; Adam, J.; Winter, L.; Quintes, S.; Linhoff, L.; Barrantes‐Freer, A. et al.; Bartl, M.; Czesnik, D.; Zschüntzsch, J.; Schmidt, J.; Primas, G.; Laffaire, J.; Rinaudo, P.; Brureau, A.; Nabirotchkin, S.; Schwab, M. H.; Nave, K.-A.; Hajj, R.; Cohen, D.; Sereda, M. W.: Synergistic PXT3003 therapy uncouples neuromuscular function from dysmyelination in male Charcot–Marie–Tooth disease type 1A (CMT1A) rats. Journal of Neuroscience Research 98 (10), pp. 1933 - 1952 (2020)
49.
Journal Article
Reinhardt, M.; Grubmüller, H.: Variationally derived intermediates for correlated free-energy estimates between intermediate states. Physical Review E 102 (4), 043312 (2020)
50.
Journal Article
Vahsen, B. F.; Ribas, V. T.; Sundermeyer, J.; Boecker, A.; Dambeck, V.; Lenz, C.; Shomroni, O.; Gomes, L. C.; Tatenhorst, L.; Barski, E. et al.; Roser, A.-E.; Michel, U.; Urlaub, H.; Salinas, G.; Bähr, M.; Koch, J. C.; Lingor, P.: Inhibition of the autophagic protein ULK1 attenuates axonal degeneration in vitro and in vivo, enhances translation, and modulates splicing. Cell Death and Differentiation 27 (10), pp. 2810 - 2827 (2020)
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