Zeitschriftenartikel (963)

2015
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Nicholas, M. P.; Berger, F.; Rao, L.; Brenner, S.; Cho, C.; Gennerich, A.: Cytoplasmic dynein regulates its attachment to microtubules via nucleotide state-switched mechanosensing at multiple AAA domains. Proceedings of the National Academy of Sciences of the United States of America 112 (20), S. 6371 - 6376 (2015)
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Niedermayer, T.; Lipowsky, R.: Association-dissociation process with aging subunits: recursive solution. Physical Review E 92 (5), 052137 (2015)
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Paradisi, P.; Allegrini, P.; Chiarugi, D.: A renewal model for the emergence of anomalous solute crowding in liposomes. BMC Systems Biology 9 (Suppl 3), S7 (2015)
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Patra, P.; Klumpp, S.: Emergence of phenotype switching through continuous and discontinuous evolutionary transitions. Physical Biology 12 (4), 046004 (2015)
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Pinchasik, B.-E. S.; Steinkühler, J.; Wuytens, P. C.; Skirtach, A. G.; Fratzl, P.; Möhwald, H.: From beetles in nature to the lab: actuating underwater locomotion on hydrophobic surfaces. Langmuir 31 (51), S. 13734 - 13742 (2015)
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Pithan, L.; Meister, E.; Jin, C.; Weber, C.; Zykov, A.; Sauer, K.; Brütting, W.; Riegler, H.; Opitz, A.; Kowarik, S.: Thermally driven smoothening of molecular thin films: structural transitions in n-alkane layers studied in real-time. The Journal of Chemical Physics 143 (16), 164707 (2015)
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Rading, M. M.; Sandmann, M.; Steup, M.; Chiarugi, D.; Valleriani, A.: Weak correlation of starch and volume in synchronized photosynthetic cells. Physical Review E 91 (1), 012711 (2015)
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Robalo, J. R.; Ramalho, J. P. P.; Huster, D.; Loura, L. M. S.: Influence of the sterol aliphatic side chain on membrane properties: a molecular dynamics study. Physical Chemistry Chemical Physics 17 (35), S. 22736 - 22748 (2015)
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Różycki, B.; Lipowsky, R.: Spontaneous curvature of bilayer membranes from molecular simulations: asymmetric lipid densities and asymmetric adsorption. The Journal of Chemical Physics 142 (5), 054101 (2015)
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Rudorf, S.; Lipowsky, R.: Protein synthesis in E. coli: dependence of codon-specific elongation on tRNA concentration and codon usage. PLoS One 10 (8), e0134994 (2015)
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Sahoo, M.; Dong, J.; Klumpp, S.: Dynamic blockage in an exclusion process. Journal of Physics A: Mathematical and Theoretical 48 (1), 015007 (2015)
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Sauter, J.; Grafmüller, A.: Solution properties of hemicellulose polysaccharides with four common carbohydrate force fields. Journal of Chemical Theory and Computation 11 (4), S. 1765 - 1774 (2015)
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Siebert, M.; Böhme, M. A.; Driller, J. H.; Babikir, H.; Mampell, M. M.; Rey, U.; Ramesh, N.; Matkovic, T.; Holton, N.; Reddy-Alla, S. et al.; Göttfert, F.; Kamin, D.; Quentin, C.; Klinedinst, S.; Andlauer, T. F.; Hell, S. W.; Collins, C. A.; Wahl, M. C.; Loll, B.; Sigrist, S. J.: A high affinity RIM-binding protein/Aplip1 interaction prevents the formation of ectopic axonal active zones. eLife 4, e06935 (2015)
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Sin, C.; Chiarugi, D.; Valleriani, A.: Single-molecule modeling of mRNA degradation by miRNA: lessons from data. BMC Systems Biology 9 (Suppl 3), S2 (2015)
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Sosale, N. G.; Rouhiparkouhi, T.; Bradshaw, A. M.; Dimova, R.; Lipowsky, R.; Discher, D. E.: Cell rigidity and shape override CD47's "sell"-signaling in phagocytosis by hyperactivating myosin-II. Blood 125 (3), S. 542 - 552 (2015)
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Soulié, V.; Karpitschka, S.; Lequien, F.; Prene, P.; Zemb, T.; Möhwald, H.; Riegler, H.: The evaporation behavior of sessile droplets from aqueous saline solutions. Physical Chemistry Chemical Physics 17 (34), S. 22296 - 22303 (2015)
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Vach, P. J.; Fratzl, P.; Klumpp, S.; Faivre, D.: Fast magnetic micropropellers with random shapes. Nano Letters 15, S. 7064 - 7070 (2015)
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Valleriani, A.: Circular analysis in complex stochastic systems. Scientific Reports 5, 17986 (2015)
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Xu, G.-K.; Hu, J.; Lipowsky, R.; Weikl, T. R.: Binding constants of membrane-anchored receptors and ligands: a general theory corroborated by Monte Carlo simulations. The Journal of Chemical Physics 143 (24), 243136 (2015)
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Yu, M.; Lira, R. B.; Riske, K. A.; Dimova, R.; Lin, H.: Ellipsoidal relaxation of deformed vesicles. Physical Review Letters 115 (12), 128303 (2015)
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Zhao, Z.; Ji, X.; Dimova, R.; Lipowsky, R.; Liu, Y.: Viscoelasticity of poly(ethylene glycol) solutions on supported lipid bilayers via quartz crystal microbalance with dissipation. Macromolecules 48 (6), S. 1824 - 1831 (2015)
2014
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Bahrami, A. H.; Raatz, M.; Agudo-Canalejo, J.; Michel, R.; Curtis, E. M.; Hall, C. K.; Gradzielski, M.; Lipowsky, R.; Weikl, T. R.: Wrapping of nanoparticles by membranes. Advances in Colloid and Interface Science 208, S. 214 - 224 (2014)
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Bennet, M.; McCarthy, A.; Fix, D.; Edwards, M. R.; Repp, F.; Vach, P.; Dunlop, J. W. C.; Sitti, M.; Buller, G. S.; Klumpp, S. et al.; Faivre, D.: Influence of magnetic fields on magneto-aerotaxis. PLoS One 9 (7), e101150 (2014)
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Dasgupta, R.; Dimova, R.: Inward and outward membrane tubes pulled from giant vesicles. Journal of Physics D: Applied Physics 47 (28), 282001 (2014)
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Dimova, R.: Recent developments in the field of bending rigidity measurements on membranes. Advances in Colloid and Interface Science 208, S. 225 - 234 (2014)
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Gomez, D.; Marathe, R.; Bierbaum, V.; Klumpp, S.: Modeling stochastic gene expression in growing cells. Journal of Theoretical Biology 348, S. 1 - 11 (2014)
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Grafmüller, A.; Knecht, V.: The free energy of nanopores in tense membranes. Physical Chemistry Chemical Physics 16 (23), S. 11270 - 11278 (2014)
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Guskova, O. A.; Seidel, C.: Nanoparticle droplets at the polymer brush/solvent interface. Vestnik Tverskovo Gossudarstvenowa Universiteta. Seriya: Khimiyaa (1), S. 44 - 55 (2014)
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Kang, Y.; Barbirz, S.; Lipowsky, R.; Santer, M.: Conformational diversity of O-antigen polysaccharides of the Gram-negative bacterium Shigella flexneri serotype Y. Journal of Physical Chemistry B 118 (9), S. 2523 - 2534 (2014)
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Karpitschka, S.; Hanske, C.; Fery, A.; Riegler, H.: Coalescence and noncoalescence of sessile drops: impact of surface forces. Langmuir 30 (23), S. 6826 - 6830 (2014)
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Karpitschka, S.; Riegler, H.: Sharp transition between coalescence and non-coalescence of sessile drops. Journal of Fluid Mechanics 743, R1 (2014)
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Klumpp, S.: The secret life of a cellular business. LaboratoryNews (1), S. 20 - 21 (2014)
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Klumpp, S.; Hwa, T.: Bacterial growth: global effects on gene expression, growth feedback and proteome partition. Current Opinion in Biotechnology 28, S. 96 - 102 (2014)
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Knorr, R. L.; Nakatogawa, H.; Ohsumi, Y.; Lipowsky, R.; Baumgart, T.; Dimova, R.: Membrane morphology is actively transformed by covalent binding of the protein Atg8 to PE-lipids. PLoS One 9 (12), e115357 (2014)
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Körnig, A.; Dong, J.; Bennet, M.; Widdrat, M.; Andert, J.; Müller, F. D.; Schüler, D.; Klumpp, S.; Faivre, D.: Probing the mechanical properties of magnetosome chains in living magnetotactic bacteria. Nano Letters 14 (8), S. 4653 - 4659 (2014)
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Krukau, A.; Knecht, V.; Lipowsky, R.: Allosteric control of kinesin's motor domain by tubulin: a molecular dynamics study. Physical Chemistry Chemical Physics 16 (13), S. 6189 - 6198 (2014)
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Lefèvre, C. T.; Bennet, M.; Landau, L.; Vach, P.; Pignol, D.; Bazylinski, D. A.; Frankel, R. B.; Klumpp, S.; Faivre, D.: Diversity of magneto-aerotactic behaviors and oxygen sensing mechanisms in cultured magnetotactic bacteria. Biophysical Journal 107 (2), S. 527 - 538 (2014)
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Li, X.; Kolomeisky, A. B.; Valleriani, A.: Pathway structure determination in complex stochastic networks with non-exponential dwell times. The Journal of Chemical Physics 140 (18), 84102 (2014)
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Li, X.; Kolomeisky, A. B.; Valleriani, A.: Stochastic kinetics on networks: when slow is fast. Journal of Physical Chemistry B 118 (35), S. 10419 - 10425 (2014)
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Lipowsky, R.: Remodeling of membrane compartments: some consequences of membrane fluidity. Biological Chemistry 395 (3), S. 253 - 274 (2014)
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Lipowsky, R.: Coupling of bending and stretching deformations in vesicle membranes. Advances in Colloid and Interface Science 208, S. 14 - 24 (2014)
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Lira, R. d.; Dimova, R.; Riske, K. A.: Giant unilamellar vesicles formed by hybrid films of agarose and lipids display altered mechanical properties. Biophysical Journal 107 (7), S. 1609 - 1619 (2014)
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Lutz, B.; Faber, M.; Verma, A.; Klumpp, S.; Schug, A.: Differences between cotranscriptional and free riboswitch folding. Nucleic Acids Research 42 (4), S. 2687 - 2696 (2014)
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Marathe, R.; Meel, C.; Schmidt, N. C.; Dewenter, L.; Kurre, R.; Greune, L.; Schmidt, M. A.; Müller, M. J. I.; Lipowsky, R.; Maier, B. et al.; Klumpp, S.: Bacterial twitching motility is coordinated by a two-dimensional tug-of-war with directional memory. Nature Communications 5, S. 3759 - 3759 (2014)
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Mauri, M.; Klumpp, S.: A model for sigma factor competition in bacterial cells. PLoS Computational Biology 10 (10), e1003845 (2014)
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Miettinen, M. S.; Monticelli, L.; Nedumpully-Govindan, P.; Knecht, V.; Ignatova, Z.: Stable polyglutamine dimers can contain β-hairpins with interdigitated side chains but not α-helices, β-nanotubes, β-pseudohelices, or steric zippers. Biophysical Journal 106 (8), S. 1721 - 1728 (2014)
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Molcan, M.; Hashim, A.; Kovac, J.; Rajnak, M.; Kopcansky, P.; Makowski, M.; Gojzewski, H.; Molokac, M.; Hvizdak, L.; Timko, M.: Characterization of magnetosomes after exposure to the effect of the sonication and ultracentrifugation. Acta Physica Polonica A 126 (1), S. 198 - 199 (2014)
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Pataraia, S.; Liu, Y.; Lipowsky, R.; Dimova, R.: Effect of cytochrome c on the phase behavior of charged multicomponent lipid membranes. Biochimica et Biophysica Acta 1838 (8), S. 2036 - 2045 (2014)
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Patra, P.; Klumpp, S.: Phenotypically heterogeneous populations in spatially heterogeneous environments. Physical Review E 89 (3), 030702 (2014)
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Pobandt, T.; Knecht, V.: Free energy of lipid bilayer defects affected by Alzheimer's disease-associated amyloid-ß42 monomers. The Journal of Physical Chemistry B 118 (13), S. 3507 - 3516 (2014)
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Ponader, D.; Igde, S.; Wehle, M.; Märker, K.; Santer, M.; Bleger, D.; Hartmann, L.: Photoswitchable precision glycooligomers and their lectin binding. Beilstein Journal of Organic Chemistry 10, S. 1603 - 1612 (2014)
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Raatz, M.; Lipowsky, R.; Weikl, T. R.: Cooperative wrapping of nanoparticles by membrane tubes. Soft Matter 10 (20), S. 3570 - 3577 (2014)
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Rudorf, S.; Thommen, M.; Rodnina, M. V.; Lipowsky, R.: Deducing the kinetics of protein synthesis in vivo from the transition rates measured in vitro. PLoS Computational Biology 10 (10), e1003909 (2014)
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Sadej, M.; Andrzejewska, E.; Kurc, B.; Gojzewski, H.; Jesionowski, T.: Surface-dependent effect of functional silica fillers on photocuring kinetics of hydrogel materials. Journal of Polymer Science, Part A: Polymer Chemistry 52 (24), S. 3472 - 3487 (2014)
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Santer, M.: New insights into lipid monolayers from coarse-grained simulation techniques. Biophysical Journal 107 (5), S. 1038 - 1039 (2014)
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Scott, M.; Klumpp, S.; Mateescu, E. M.; Hwa, T.: Emergence of robust growth laws from optimal regulation of ribosome synthesis. Molecular Systems Biology 10 (8), 747 (2014)
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Stefaniu, C.; Vilotijevic, I.; Santer, M.; Brezesinski, G.; Seeberger, P. H.; Silva, D. V.: Versatility of a glycosylphosphatidylinositol fragment in forming highly ordered polymorphs. Langmuir 30 (18), S. 5185 - 5192 (2014)
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Valleriani, A.; Li, X.; Kolomeisky, A. B.: Unveiling the hidden structure of complex stochastic biochemical networks. The Journal of Chemical Physics 140 (6), 064101 (2014)
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Weikl, T. R.; Paul, F.: Conformational selection in protein binding and function. Protein Science 23 (11), S. 1508 - 1518 (2014)
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Yuzenkova, Y.; Gamba, P.; Herber, M.; Attaiech, L.; Shafeeq, S.; Kuipers, O. P.; Klumpp, S.; Zenkin, N.; Veening, J.-W.: Control of transcription elongation by GreA determines rate of gene expression in Streptococcus pneumoniae. Nucleic Acids Research 42 (17), S. 10987 - 10999 (2014)
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Ziobrowski, P.; Andrzejewska, E.; Szybowicz, M.; Nowicka, A.; Sadej-Bajerlein, M.; Gojzewski, H.; Drozdowski, M.: Particle clustering in photocurable nanocomposites: dependence of curing kinetics and viscoelastic properties. Journal of Applied Polymer Science 131 (4), 39895 (2014)
2013
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Awasthi, N.; Ritschel, T.; Lipowsky, R.; Knecht, V.: Standard Gibbs energies of formation and equilibrium constants from ab-initio calculations: covalent dimerization of NO2 and synthesis of NH3. The Journal of Chemical Thermodynamics 62, S. 211 - 221 (2013)
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Bahrami, A. H.: Orientational changes and impaired internalization of ellipsoidal nanoparticles by vesicle membranes. Soft Matter 9 (36), S. 8642 - 8646 (2013)
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Berger, F.; Keller, C.; Lipowsky, R.; Klumpp, S.: Elastic coupling effects in cooperative transport by a pair of molecular motors. Cellular and Molecular Bioengineering 6 (1 SI), S. 48 - 64 (2013)
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Bezlyepkina, N.; Gracia, R. S.; Shchelokovskyy, P.; Lipowsky, R.; Dimova, R.: Phase diagram and tie-line determination for the ternary mixture DOPC/eSM/cholesterol. Biophysical Journal 104 (7), S. 1456 - 1464 (2013)
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Bierbaum, V.; Lipowsky, R.: Dwell time distributions of the molecular motor myosin V. PLoS One 8 (2), e55366 (2013)
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Cupelli, C.; Borchardt, T.; Steiner, T.; Paust, N.; Zengerle, R.; Santer, M.: Leukocyte enrichment based on a modified pinched flow fractionation approach. Microfluidics and Nanofluidics 14 (3-4), S. 551 - 563 (2013)
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Deneke, C.; Lipowsky, R.; Valleriani, A.: Effect of ribosome shielding on mRNA stability. Physical Biology 10 (4), 046008 (2013)
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Deneke, C.; Lipowsky, R.; Valleriani, A.: Complex degradation processes lead to non-exponential decay patterns and age-dependent decay rates of messenger RNA. PLoS One 8 (2), e55442 (2013)
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Dong, J. J.; Klumpp, S.; Zia, R. K. P.: Mass transport perspective on an accelerated exclusion process: Analysis of augmented current and unit-velocity phases. Physical Review E 87 (2), 022146 (2013)
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Faber, M.; Klumpp, S.: Kinetic Monte Carlo approach to RNA folding dynamics using structure-based models. PHYSICAL REVIEW E 88 (5), 052701 (2013)
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Grafmüller, A.; Lipowsky, R.; Knecht, V.: Effect of tension and curvature on the chemical potential of lipids in lipid aggregates. Physical Chemistry Chemical Physics 15 (3), S. 876 - 881 (2013)
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Grafmüller, A.; Noya, E. G.; Voth, G. A.: Nucleotide-dependent lateral and longitudinal interactions in microtubules. Journal of Molecular Biology (London) 425 (12), S. 2232 - 2246 (2013)
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Hintsche, M.; Klumpp, S.: Dilution and the theoretical description of growth-rate dependent gene expression. Journal of Biological Engineering 7 (1), 22 (2013)
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Hu, J. L.; Lipowsky, R.; Weikl, T. R.: Binding constants of membrane-anchored receptors and ligands depend strongly on the nanoscale roughness of membranes. Proceedings of the National Academy of Sciences of the United States of America 110 (38), S. 15283 - 15288 (2013)
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Irudayam, S. J.; Pobandt, T.; Berkowitz, M. L.: Free energy barrier for melittin reorientation from a membrane-bound state to a transmembrane state. The Journal of Physical Chemistry B 117 (43), S. 13457 - 13463 (2013)
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Jégou, A.; Niedermayer, T.; Lipowsky, R.; Carlier, M.-F.; Romet-Lemonne, G.: On Phosphate Release in Actin Filaments. Biophysical Journal 104 (12), S. 2778 - 2779 (2013)
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Kang, Y.; Barbiz, S.; Lipowsky, R.; Santer, M.: Conformational insights into recognition mechanism of O-antigen polysaccharides by tailspike protein. European Biophysics Journal with Biophysics Letters 42 (Suppl. 1), S. S112 - S112 (2013)
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Kar, P.; Lipowsky, R.; Knecht, V.: Importance of polar solvation and configurational entropy for design of antiretroviral drugs targeting HIV-1 protease. The Journal of Physical Chemistry B 117 (19), S. 5793 - 5805 (2013)
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Keller, C.; Berger, F.; Liepelt, S.; Lipowsky, R.: Network complexity and parametric simplicity for cargo transport by two molecular motors. Journal of Statistical Physics 150 (2), S. 205 - 234 (2013)
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Klumpp, S.: A Superresolution Census of RNA Polymerase. Biophysical Journal 105 (12), S. 2613 - 2614 (2013)
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Klumpp, S.; Scott, M.; Pedersen, S.; Hwa, T.: Molecular crowding limits translation and cell growth. Proceedings of the National Academy of Sciences of the United States of America 110 (42), S. 16754 - 16759 (2013)
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Knecht, V.; Klasczyk, B.: Specific binding of chloride ions to lipid vesicles and implications at molecular scale. Biophysical Journal 104 (4), S. 818 - 824 (2013)
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Knecht, V.; Klasczyk, B.; Dimova, R.: Macro- versus microscopic view on the electrokinetics of a water-membrane interface. Langmuir 29 (25), S. 7939 - 7948 (2013)
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Li, X.; Lipowsky, R.; Kierfeld, J.: Bifurcation of velocity distributions in cooperative transport of filaments by fast and slow motors. Biophysical Journal 104 (3), S. 666 - 676 (2013)
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Lipowsky, R.: Spontaneous tubulation of membranes and vesicles reveals membrane tension generated by spontaneous curvature. Faraday Discussions 161, S. 305 - 331 (2013)
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Lipowsky, R.; Rouhiparkouhi, T.; Discher, D. E.; Weikl, T. R.: Domain formation in cholesterol-phospholipid membranes exposed to adhesive surfaces or environments. Soft Matter 9 (35), S. 8438 - 8453 (2013)
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Mertins, O.; Dimova, R.: Insights on the interactions of chitosan with phospholipid vesicles. Part I: effect of polymer deprotonation. Langmuir 29 (47), S. 14545 - 14551 (2013)
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Mertins, O.; Dimova, R.: insights on the interactions of chitosan with phospholipid vesicles. Part II: membrane stiffening and pore formation. Langmuir 29 (47), S. 14552 - 14559 (2013)
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Minh Dang, T.; Vila Verde, A.; Van Nguyen, D.; Bolhuis, P. G.; Schall, P.: Temperature-sensitive colloidal phase behavior induced by critical Casimir forces. JOURNAL OF CHEMICAL PHYSICS 139 (9), 094903 (2013)
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Neuman, B. W.; Kiss, G.; Al-Mulla, H. M. N.; Dokland, T.; Buchmeier, M. J.; Weikl, T.; Schley, D.: Direct observation of membrane insertion by enveloped virus matrix proteins by phosphate displacement. PLoS One 8 (2), e57916 (2013)
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Patra, P.; Klumpp, S.: Population dynamics of bacterial persistence. PLoS One 8 (5), e62814 (2013)
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Perez-Hernandez, G.; Paul, F.; Giorgino, T.; De Fabritiis, G.; Noe, F.: Identification of slow molecular order parameters for Markov model construction. The Journal of Chemical Physics 139 (1), 015102 (2013)
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Rouhiparkouhi, T.; Weikl, T. R.; Discher, D. E.; Lipowsky, R.: Adhesion-Induced Phase Behavior of Two-Component Membranes and Vesicles. International Journal of Molecular Sciences 14 (1), S. 2203 - 2229 (2013)
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Sahoo, M.; Klumpp, S.: Backtracking dynamics of RNA polymerase: pausing and error correction. Journal of Physics: Condensed Matter 25 (37), 374104 (2013)
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Shapovalov, V. L.; Möhwald, H.; Konovalov, O. V.; Knecht, V.: Negligible water surface charge determined using Kelvin probe and total reflection X-ray fluorescence techniques. Physical Chemistry Chemical Physics 15 (33), S. 13991 - 13998 (2013)
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Smirnova, Y. G.; Aeffner, S.; Risselada, H. J.; Salditt, T.; Marrink, S. J.; Müller, M.; Knecht, V.: Interbilayer repulsion forces between tension-free lipid bilayers from simulation. Soft Matter 9 (45), S. 10705 - 10718 (2013)
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Sosale, N.; Rouhi, T.; Lipowsky, R.; Discher, D. E.: 'Marker of self', CD47, modulates mechanical forces imposed by macrophages during phagocytosis. Biophysical Journal 104 (2 Suppl. 1), S. 480A - 480A (2013)
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Suraniti, E.; Kanoufi, F.; Gosse, C.; Zhao, X.; Dimova, R.; Pouligny, B.; Sojic, N.: Electrochemical Detection of Single Microbeads Manipulated by Optical Tweezers in the Vicinity of Ultramicroelectrodes. Analytical Chemistry 85 (19), S. 8902 - 8909 (2013)
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