Publications

Agudo-Canalejo, J.; Lipowsky, R.: Critical particle sizes for the engulfment of nanoparticles by membranes and vesicles with bilayer asymmetry. ACS Nano 9 (4), pp. 3704 - 3720 (2015)

Agudo-Canalejo, J.; Lipowsky, R.: Adhesive nanoparticles as local probes of membrane curvature. Nano Letters 15 (10), pp. 7168 - 7173 (2015)

Bennet, M.; Bertinetti, L.; Neely, R. K.; Schertel, A.; Körnig, A.; Flors, C.; Müller, F. D.; Schüler, D.; Klumpp, S.; Faivre, D.: Biologically controlled synthesis and assembly of magnetite nanoparticles. Faraday Discussions 181, pp. 71 - 83 (2015)

Berger, F.; Keller, C.; Klumpp, S.; Lipowsky, R.: External forces influence the elastic coupling effects during cargo transport by molecular motors. Physical Review E 91 (2), 022701 (2015)

Bierbaum, V.; Klumpp, S.: Impact of the cell division cycle on gene circuits. Physical Biology 12 (6), 066003 (2015)

Bodei, C.; Bortolussi, L.; Chiarugi, D.; Guerriero, M. L.; Policriti, A.; Romanel, A.: On the impact of discreteness and abstractions on modelling noise in gene regulatory networks. Computational Biology and Chemistry 56, pp. 98 - 108 (2015)

Chiarugi, D.; Falaschi, M.; Hermith, D.; Olarte, C.: Verification of spatial and temporal modalities in biochemical systems. Electronic Notes in Theoretical Computer Science 316, pp. 29 - 44 (2015)

Chiarugi, D.; Falaschi, M.; Hermith, D.; Olarte, C.; Torella, L.: Modelling non-Markovian dynamics in biochemical reactions. BMC Systems Biology 9 (Suppl 3), S8 (2015)

Curtis, E. M.; Bahrami, A. H.; Weikl, T. R.; Hall, C. K.: Modeling nanoparticle wrapping or translocation in bilayer membranes. Nanoscale 7 (34), pp. 14505 - 14514 (2015)

Dontsova, D.; Pronkin, S.; Wehle, M.; Chen, Z.; Fettkenhauer, C.; Clavel, G.; Antonietti, M.: Triazoles: a new class of precursors for the synthesis of negatively charged carbon nitride derivatives. Chemistry of Materials 27 (15), pp. 5170 - 5179 (2015)

Ghani, F.; Gojzewski, H.; Riegler, H.: Nucleation and growth of copper phthalocyanine aggregates deposited from solution on planar surfaces. Applied Surface Science 351, pp. 969 - 976 (2015)

Gomez, D.; Klumpp, S.: Biochemical reactions in crowded environments: revisiting the effects of volume exclusion with simulations. Frontiers in Physics 3, 45 (2015)

Hu, J.; Xu, G.-K.; Lipowsky, R.; Weikl, T. R.: Binding kinetics of membrane-anchored receptors and ligands: molecular dynamics simulations and theory. The Journal of Chemical Physics 143 (24), 243137 (2015)

Jehannin, M.; Charton, S.; Karpitschka, S.; Zemb, T.; Möhwald, H.; Riegler, H.: Periodic precipitation patterns during coalescence of reacting sessile droplets. Langmuir 31 (42), pp. 11484 - 11490 (2015)

Karpitschka, S.; Weber, C. M.; Riegler, H.: Spin casting of dilute solutions: vertical composition profile during hydrodynamic-evaporative film thinning. Chemical Engineering Science 129, pp. 243 - 248 (2015)

Keller, P.; Rœlly, S.; Valleriani, A.: A quasi random walk to model a biological transport process. Methodology and Computing in Applied Probability 17 (1), pp. 125 - 137 (2015)

Keller, P.; Rœlly, S.; Valleriani, A.: On time duality for Markov chains. Stochastic Models 31 (1), pp. 98 - 118 (2015)

Kiani, B.; Faivre, D.; Klumpp, S.: Elastic properties of magnetosome chains. New Journal of Physics 17 (4), 043007 (2015)

Klumpp, S.; Kiani, B.; Vach, P. J.; Faivre, D.: Navigation with magnetic nanoparticles: magnetotactic bacteria and magnetic micro-robots. Physica Scripta 2015 (T165), 014044 (2015)

Knorr, R. L.; Lipowsky, R.; Dimova, R.: Autophagosome closure requires membrane scission. Autophagy 11 (11), pp. 2134 - 2137 (2015)

Lefèvre, C. T.; Bennet, M.; Klumpp, S.; Faivre, D.: Positioning the flagellum at the center of a dividing cell to combine bacterial division with magnetic polarity. mBio 6 (2), e02286-14 (2015)

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), pp. 6371 - 6376 (2015)

Niedermayer, T.; Lipowsky, R.: Association-dissociation process with aging subunits: recursive solution. Physical Review E 92 (5), 052137 (2015)

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)

Patra, P.; Klumpp, S.: Emergence of phenotype switching through continuous and discontinuous evolutionary transitions. Physical Biology 12 (4), 046004 (2015)

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), pp. 13734 - 13742 (2015)

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)

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)

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), pp. 22736 - 22748 (2015)

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)

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)

Sahoo, M.; Dong, J.; Klumpp, S.: Dynamic blockage in an exclusion process. Journal of Physics A: Mathematical and Theoretical 48 (1), 015007 (2015)

Sauter, J.; Grafmüller, A.: Solution properties of hemicellulose polysaccharides with four common carbohydrate force fields. Journal of Chemical Theory and Computation 11 (4), pp. 1765 - 1774 (2015)

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)

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)

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), pp. 542 - 552 (2015)

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), pp. 22296 - 22303 (2015)

Vach, P. J.; Fratzl, P.; Klumpp, S.; Faivre, D.: Fast magnetic micropropellers with random shapes. Nano Letters 15, pp. 7064 - 7070 (2015)

Valleriani, A.: Circular analysis in complex stochastic systems. Scientific Reports 5, 17986 (2015)

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)

Yu, M.; Lira, R. B.; Riske, K. A.; Dimova, R.; Lin, H.: Ellipsoidal relaxation of deformed vesicles. Physical Review Letters 115 (12), 128303 (2015)

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), pp. 1824 - 1831 (2015)

Chiarugi, D.; Falaschi, M.; Olarte, C.; Palamidessi, C.: A Declarative View of Signaling Pathways. In: Lecture Notes in Computer Science, Vol. 9465. Springer, Cham (2015)

Klumpp, S.; Faivre, D.: Magnetotactic bacteria. In: Microswimmers - From single particle motion to collective behaviour, pp. B5.1 - B5.13 (Eds. Gompper, G.; Bechinger, C.). Forschungszentrum Jülich, Jülich (2015)

Klumpp, S.; Keller, C.; Berger, F.; Lipowsky, R.: Molecular Motors: Cooperative Phenomena of Multiple Molecular Motors. In: Multiscale Modeling in Biomechanics and Mechanobiology, pp. 27 - 61 (Eds. De, S.; Hwang, W.; Kuhl, E.). Springer, London (2015)

Fricke, N.; Dimova, R.: How GM1 Affects the Phase State and Mechanical Properties of Phospholipid Membranes. Biophysical Journal (Annual Meeting Abstracts) 108 (2), p. 18A - 18A (2015)

Dasgupta, R.; Lipowsky, R.; Dimova, R.: Measuring the Intrinsic Curvature of Ganglioside GM1. In Biophysical Journal (Annual Meeting Abstracts), 108 (2), p. 239A - 239A. Biophysical Society, Bethesda, MD (2015)

Georgiev, V.; Bleger, D.; Grafmüller, A.; Hecht, S.; Dimova, R.: Light-Induced Transformations in Lipid Membranes. In Biophysical Journal (Annual Meeting Abstracts), 108 (2), p. 240A - 240A. Biophysical Society, Bethesda, MD (2015)

Lira, R. B.; Dimova, R.; Riske, K. A.: Protein-Free Membrane Fusion Probed by Single Giant Unilamellar Vesicle Imaging - the Role of Membrane Charge. In Biophysical Journal (Annual Meeting Abstracts), 108 (2), 911-Plat, p. 181A - 181A. Biophysical Society, Bethesda, MD (2015)

Steinkühler, J.; Agudo-Canalejo, J.; Lipowsky, R.; Dimova, R.: Variable Adhesion Strength for Giant Unilamellar Vesicles Controlled by External Electrostatic Potentials. In Biophysical Journal (Annual Meeting Abstracts), 108 (2), p. 402A - 402A. 59th Annual Meeting of the Biophysical-Society, Baltimore, MD, February 07, 2015 - February 11, 2015. Biophysical Society, Bethesda, MD (2015)

Faber, M.: Folding dynamics of RNA secondary structures. A structure based approach. Dissertation, Universität Potsdam, Potsdam (2015)

Jehannin, M.: About the role of physico-chemical properties and hydrodynamics on the progress of a precipitation reaction: the case of cerium oxalate particles produced during coalescence of drops. Dissertation, Universität, Potsdam (2015)

Jin, C.: Theoretical and experimental study of capillary effect on melting. Dissertation, Universität Potsdam, Potsdam (2015)

Rudorf, S.: Protein synthesis by ribosomes. Dissertation, Universität Potsdam, Potsdam (2015)

Soulié, V.: Sessile droplets of salt solutions on inert and metallic surfaces: influence of salt concentration gradients on evaporation and corrosion behaviour. Dissertation, Universität, Potsdam (2015)