@article{ZemanovaZhouKurths2006, author = {Zemanova, Lucia and Zhou, Changsong and Kurths, J{\"u}rgen}, title = {Structural and functional clusters of complex brain networks}, series = {Physica, D, Nonlinear phenomena}, volume = {224}, journal = {Physica, D, Nonlinear phenomena}, number = {1-2}, publisher = {Elsevier}, address = {Amsterdam}, issn = {0167-2789}, doi = {10.1016/j.physd.2006.09.008}, pages = {202 -- 212}, year = {2006}, abstract = {Recent research using the complex network approach has revealed a rich and complicated network topology in the cortical connectivity of mammalian brains. It is of importance to understand the implications of such complex network structures in the functional organization of the brain activities. Here we study this problem from the viewpoint of dynamical complex networks. We investigate synchronization dynamics on the corticocortical network of the cat by modeling each node (cortical area) of the network with a sub-network of interacting excitable neurons. We find that the network displays clustered synchronization behavior, and the dynamical clusters coincide with the topological community structures observed in the anatomical network. Our results provide insights into the relationship between the global organization and the functional specialization of the brain cortex.}, language = {en} } @article{MeucciSalvadoriIvanchenkoetal.2006, author = {Meucci, Riccardo and Salvadori, Francesco and Ivanchenko, Mikhail V. and Al Naimee, Kais and Zhou, Chansong and Arecchi, Fortunato Tito and Boccaletti, Stefano and Kurths, J{\"u}rgen}, title = {Synchronization of spontaneous bursting in a CO2 laser}, series = {Physical review : E, Statistical, nonlinear and soft matter physics}, volume = {74}, journal = {Physical review : E, Statistical, nonlinear and soft matter physics}, publisher = {American Physical Society}, address = {College Park}, issn = {2470-0045}, doi = {10.1103/PhysRevE.74.066207}, pages = {6}, year = {2006}, abstract = {We present experimental and numerical evidence of synchronization of burst events in two different modulated CO2 lasers. Bursts appear randomly in each laser as trains of large amplitude spikes intercalated by a small amplitude chaotic regime. Experimental data and model show the frequency locking of bursts in a suitable interval of coupling strength. We explain the mechanism of this phenomenon and demonstrate the inhibitory properties of the implemented coupling.}, language = {en} } @article{SramaKempfMoragasKlostermeyeretal.2006, author = {Srama, Ralf and Kempf, S. and Moragas-Klostermeyer, Georg and Helfert, S. and Ahrens, T. J. and Altobelli, N. and Auer, S. and Beckmann, U. and Bradley, J. G. and Burton, M. and Dikarev, V. V. and Economou, T. and Fechtig, H. and Green, S. F. and Grande, M. and Havnes, O. and Hillierf, J.K. and Horanyii, M. and Igenbergsj, E. and Jessberger, E. K. and Johnson, T. V. and Kr{\"u}ger, H. and Matt, G. and McBride, N. and Mocker, A. and Lamy, P. and Linkert, D. and Linkert, G. and Lura, F. and McDonnell, J.A.M. and M{\"o}hlmann, D. and Morfill, G. E. and Postberg, F. and Roy, M. and Schwehm, G.H. and Spahn, Frank and Svestka, J. and Tschernjawski, V. and Tuzzolino, A. J. and W{\"a}sch, R. and Gr{\"u}n, E.}, title = {In situ dust measurements in the inner Saturnian system}, series = {Planetary and space science}, volume = {54}, journal = {Planetary and space science}, number = {9-10}, publisher = {Elsevier}, address = {Oxford}, issn = {0032-0633}, doi = {10.1016/j.pss.2006.05.021}, pages = {967 -- 987}, year = {2006}, abstract = {In July 2004 the Cassini-Huygens mission reached the Saturnian system and started its orbital tour. A total of 75 orbits will be carried out during the primary mission until August 2008. In these four years Cassini crosses the ring plane 150 times and spends approx. 400 h within Titan's orbit. The Cosmic Dust Analyser (CDA) onboard Cassini characterises the dust environment with its extended E ring and embedded moons. Here, we focus on the CDA results of the first year and we present the Dust Analyser (DA) data within Titan's orbit. This paper does investigate High Rate Detector data and dust composition measurements. The authors focus on the analysis of impact rates, which were strongly variable primarily due to changes of the spacecraft pointing. An overview is given about the ring plane crossings and the DA counter measurements. The DA dust impact rates are compared with the DA boresight configuration around all ring plane crossings between June 2004 and July 2005. Dust impacts were registered at altitudes as high as 100 000 km above the ring plane at distances from Saturn between 4 and 10 Saturn radii. In those regions the dust density of particles bigger than 0.5 can reach values of 0.001m-3.}, language = {en} } @article{PawlikPikovskij2006, author = {Pawlik, Andreas H. and Pikovskij, Arkadij}, title = {Control of oscillators coherence by multiple delayed feedback}, series = {Modern physics letters : A, Particles and fields, gravitation, cosmology, nuclear physics}, volume = {358}, journal = {Modern physics letters : A, Particles and fields, gravitation, cosmology, nuclear physics}, number = {3}, publisher = {American Institute of Physics}, address = {Amsterdam}, issn = {0375-9601}, doi = {10.1016/j.physleta.2006.05.013}, pages = {181 -- 185}, year = {2006}, abstract = {We demonstrate that a multiple delayed feedback is a powerful tool to control coherence properties of autonomous self-sustained oscillators. We derive the equation for the phase dynamics in presence of noise and delay, and analyze it analytically. In Gaussian approximation a closed set of equations for the frequency and the diffusion constant is obtained. Solutions of these equations are in good agreement with direct numerical simulations.}, language = {en} } @article{OskinovaFeldmeierHamann2006, author = {Oskinova, Lida and Feldmeier, Achim and Hamann, Wolf-Rainer}, title = {High-resolution X-ray spectroscopy of bright O-type stars}, series = {Monthly notices of the Royal Astronomical Society}, volume = {372}, journal = {Monthly notices of the Royal Astronomical Society}, publisher = {Oxford University Press}, address = {Oxford}, issn = {0035-8711}, doi = {10.1111/j.1365-2966.2006.10858.x}, pages = {313 -- 326}, year = {2006}, abstract = {Archival X-ray spectra of the four prominent single, non-magnetic O stars zeta Pup, zeta Ori, xi Per and zeta Oph, obtained in high resolution with Chandra HETGS/MEG have been studied. The resolved X-ray emission line profiles provide information about the shocked, hot gas which emits the X-radiation, and about the bulk of comparably cool stellar wind material which partly absorbs this radiation. In this paper, we synthesize X-ray line profiles with a model of a clumpy stellar wind. We find that the geometrical shape of the wind inhomogeneities is important: better agreement with the observations can be achieved with radially compressed clumps than with spherical clumps. The parameters of the model, i.e. chemical abundances, stellar radius, mass-loss rate and terminal wind velocity, are taken from existing analyses of UV and optical spectra of the programme stars. On this basis, we also calculate the continuum-absorption coefficient of the cool-wind material, using the Potsdam Wolf-Rayet (POWR) model atmosphere code. The radial location of X-ray emitting gas is restricted from analysing the FIR line ratios of helium-like ions. The only remaining free parameter of our model is the typical distance between the clumps; here, we assume that at any point in the wind there is one clump passing by per one dynamical time-scale of the wind. The total emission in a model line is scaled to the observation. There is a good agreement between synthetic and observed line profiles. We conclude that the X-ray emission line profiles in O stars can be explained by hot plasma embedded in a cool wind which is highly clumped in the form of radially compressed shell fragments.}, language = {en} } @article{SaalfrankNestAndrianovetal.2006, author = {Saalfrank, Peter and Nest, Mathias and Andrianov, Igor V. and Klamroth, Tillmann and Kroner, Dominic and Beyvers, Stephanie}, title = {Quantum dynamics of laser-induced desorption from metal and semiconductor surfaces, and related phenomena}, volume = {18}, number = {30}, publisher = {IOP Publ.}, address = {Bristol}, issn = {1361-648X}, doi = {10.1088/0953-8984/18/30/S05}, pages = {S1425 -- S1459}, year = {2006}, abstract = {Recent progress towards a quantum theory of laser-induced desorption and related phenomena is reviewed, for specific examples. These comprise the photodesorption of NO from Pt(111), the scanning tunnelling microscope and laser- induced desorption and switching of H at Si(100), and the electron stimulated desorption and dissociation of CO at Ru(0001). The theoretical methods used for nuclear dynamics range from open-system density matrix theory over nonadiabatically coupled multi-state models to electron-nuclear wavepackets. Also, aspects of time-dependent spectroscopy to probe ultrafast nonadiabatic processes at surfaces will be considered for the example of two-photon photoemission of solvated electrons in ice layers on Cu(111)}, language = {en} } @article{FruebingKremmerGerhardetal.2006, author = {Fr{\"u}bing, Peter and Kremmer, Alexander and Gerhard, Reimund and Spanoudaki, Anna and Pissis, Polycarpos}, title = {Relaxation processes at the glass transition in polyamide 11: From rigidity to viscoelasticity}, series = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, volume = {125}, journal = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, number = {12}, publisher = {American Institute of Physics}, address = {Melville}, issn = {0021-9606}, doi = {10.1063/1.2360266}, pages = {8}, year = {2006}, abstract = {Relaxation processes associated with the glass transition in nonferroelectric and ferroelectric polyamide (PA) 11 are investigated by means of differential scanning calorimetry, dynamic mechanical analysis, and dielectric relaxation spectroscopy (DRS) in order to obtain information about the molecular mobility within the amorphous phase. In particular, the effects of melt quenching, cold drawing, and annealing just below the melting region are studied with respect to potential possibilities and limitations for improving the piezoelectric and pyroelectric properties of PA 11. A relaxation map is obtained from DRS that shows especially the crossover region where the cooperative alpha relaxation and the local beta relaxation merge into a single high-temperature process. No fundamental difference between quenched, cold-drawn, and annealed films is found, though in the cold-drawn (ferroelectric) film the alpha relaxation is suppressed and slowed down, but it is at least partly recovered by subsequent annealing. It is concluded that there exists an amorphous phase in all structures, even in the cold-drawn film. The amorphous phase can be more rigid or more viscoelastic depending on preparation. Cold drawing not only leads to crystallization in a ferroelectric form but also to higher rigidity of the remaining amorphous phase. Annealing just below the melting region after cold drawing causes a stronger phase separation between the crystalline phase and a more viscoelastic amorphous phase.}, language = {en} } @article{FloresSuarezMellingerWegeneretal.2006, author = {Flores Su{\´a}rez, Rosaura and Mellinger, Axel and Wegener, Michael and Wirges, Werner and Gerhard, Reimund and Singh, Rajeev}, title = {Thermal-pulse tomography of polarization distributions in a cylindrical geometry}, series = {IEEE transactions on dielectrics and electrical insulation}, volume = {13}, journal = {IEEE transactions on dielectrics and electrical insulation}, number = {5}, publisher = {IEEE}, address = {Piscataway}, issn = {1070-9878}, doi = {10.1109/TDEI.2006.258210}, pages = {1030 -- 1035}, year = {2006}, abstract = {Fast, three-dimensional polarization mapping in piezoelectric sensor cables was performed by means of the novel thermal-pulse tomography (TPT) technique with a lateral resolution of 200 mum. The active piezoelectric cable material (a copolymer of polyvinylidene fluoride with trifluoroethylene) was electrically poled with a point-to-cable corona discharge. A focused laser was employed to heat the opaque outer electrode, and the short-circuit current generated by the thermal pulse was used to obtain 3D polarization maps via the scale transformation method. The article describes the TPT technique as a fast non-destructive option for studying cylindrical geometries.}, language = {en} } @article{YangJaiserStilleretal.2006, author = {Yang, Xiao Hui and Jaiser, Frank and Stiller, Burkhard and Neher, Dieter and Galbrecht, Frank and Scherf, Ullrich}, title = {Efficient polymer electrophosphoreseent devices with interfacial layers}, series = {Advanced functional materials}, volume = {16}, journal = {Advanced functional materials}, number = {16}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {1616-301X}, doi = {10.1002/adfm.200500834}, pages = {2156 -- 2162}, year = {2006}, abstract = {It is shown that several polymers can form insoluble interfacial layers on a poly (ethylenedioxythiophene):poly(styrene sulfonate) (PEDOT:PSS) layer after annealing of the double-layer structure. The thickness of the interlayer is dependent on the characteristics of the underlying PEDOT.PSS and the molecular weight of the polymers. It is further shown that the electronic structures of the interlayer polymers have a significant effect on the properties of red-light-emitting polymer-based electrophosphorescent devices. Upon increasing the highest occupied molecular orbital and lowest unoccupied molecular orbital positions, a significant increase in current density and device efficiency is observed. This is attributed to efficient blocking of electrons in combination with direct injection of holes from the interlayer to the phosphorescent dye. Upon proper choice of the interlayer polymer, efficient red, polymer-based electrophosphorescent devices with a peak luminance efficiency of 5.5 cd A(-1) (external quantum efficiency = 6 \%) and a maximum power-conversion efficiency of 5 Im W-1 can be realized.}, language = {en} } @article{MechauSaphiannikovaNeher2006, author = {Mechau, Norman and Saphiannikova, Marina and Neher, Dieter}, title = {Molecular tracer diffusion in thin azobenzene polymer layers}, series = {Applied physics letters}, volume = {89}, journal = {Applied physics letters}, number = {25}, publisher = {Elsevier}, address = {Melville}, issn = {0003-6951}, doi = {10.1063/1.2405853}, pages = {3}, year = {2006}, abstract = {Translational diffusion of fluorescent tracer molecules in azobenzene polymer layers is studied at different temperatures and under illumination using the method of fluorescence recovery after photobleaching. Diffusion is clearly observed in the dark above the glass transition temperature, while homogeneous illumination at 488 nm and 100 mW/cm(2) does not cause any detectable diffusion of the dye molecules within azobenzene layers. This implies that the viscosity of azobenzene layers remains nearly unchanged under illumination with visible light in the absence of internal or external forces. (c) 2006 American Institute of Physics.}, language = {en} } @article{PalyulinAlaNissilaMetzler2014, author = {Palyulin, Vladimir V. and Ala-Nissila, Tapio and Metzler, Ralf}, title = {Polymer translocation: the first two decades and the recent diversification}, series = {Soft matter}, volume = {45}, journal = {Soft matter}, number = {10}, editor = {Metzler, Ralf}, publisher = {the Royal Society of Chemistry}, address = {Cambridge}, issn = {1744-683X}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-76266}, pages = {9016 -- 9037}, year = {2014}, abstract = {Probably no other field of statistical physics at the borderline of soft matter and biological physics has caused such a flurry of papers as polymer translocation since the 1994 landmark paper by Bezrukov, Vodyanoy, and Parsegian and the study of Kasianowicz in 1996. Experiments, simulations, and theoretical approaches are still contributing novel insights to date, while no universal consensus on the statistical understanding of polymer translocation has been reached. We here collect the published results, in particular, the famous-infamous debate on the scaling exponents governing the translocation process. We put these results into perspective and discuss where the field is going. In particular, we argue that the phenomenon of polymer translocation is non-universal and highly sensitive to the exact specifications of the models and experiments used towards its analysis.}, language = {en} } @article{JeonChechkinMetzler2014, author = {Jeon, Jae-Hyung and Chechkin, Aleksei V. and Metzler, Ralf}, title = {Scaled Brownian motion: a paradoxical process with a time dependent diffusivity for the description of anomalous diffusion}, series = {Physical chemistry, chemical physics : PCCP}, volume = {30}, journal = {Physical chemistry, chemical physics : PCCP}, number = {16}, publisher = {The Royal Society of Chemistry}, address = {Cambridge}, doi = {10.1039/C4CP02019G}, pages = {15811 -- 15817}, year = {2014}, abstract = {Anomalous diffusion is frequently described by scaled Brownian motion (SBM){,} a Gaussian process with a power-law time dependent diffusion coefficient. Its mean squared displacement is ?x2(t)? [similar{,} equals] 2K(t)t with K(t) [similar{,} equals] t[small alpha]-1 for 0 < [small alpha] < 2. SBM may provide a seemingly adequate description in the case of unbounded diffusion{,} for which its probability density function coincides with that of fractional Brownian motion. Here we show that free SBM is weakly non-ergodic but does not exhibit a significant amplitude scatter of the time averaged mean squared displacement. More severely{,} we demonstrate that under confinement{,} the dynamics encoded by SBM is fundamentally different from both fractional Brownian motion and continuous time random walks. SBM is highly non-stationary and cannot provide a physical description for particles in a thermalised stationary system. Our findings have direct impact on the modelling of single particle tracking experiments{,} in particular{,} under confinement inside cellular compartments or when optical tweezers tracking methods are used.}, language = {en} } @article{SchmidtBechmann2014, author = {Schmidt, Joachim and Bechmann, Wolfgang}, title = {Zur Anwendung des Skalarprodukts von Kraft und Weg auf reversible Prozesse (Druck-Volumen-{\"A}nderung, Dehnung, Elektrostatische Wechselwirkung, Hub)}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-69732}, year = {2014}, abstract = {Wir schlagen einen allgemein anwendbaren Algorithmus vor, der unter Verwendung des Skalarprodukts von Kraft und Weg zum richtigen Vorzeichen in den Gleichungen f{\"u}r die Arbeit und die Potentielle Energie bei reversiblen Prozessen (Druck-Volumen-{\"A}nderung, Dehnung, Elektrostatische Wechselwirkung, Hub)f{\"u}hrt. Wir zeigen, dass es dabei m{\"o}glich ist, systemimmanente oder externe Kr{\"a}fte zu benutzen. Wir zeigen, dass bei Verwendung von systemimmanenten Kr{\"a}ften das Skalarprodukt mit negativem Vorzeichen anzusetzen ist. Zudem ist es sehr wichtig, n{\"o}tige Vorzeichenwechsel bei den einzelnen Schritten zu beachten. Wir betonen dies, weil gelegentlich {\"u}bersehen wird, dass ein Vorzeichenwechsel n{\"o}tig ist, wenn das Wegdifferential ds durch das H{\"o}hendifferential dh beziehungsweise durch das Abstandsdifferential dx oder dr ersetzt werden muss.}, language = {de} } @article{GoychukKharchenkoMetzler2014, author = {Goychuk, Igor A. and Kharchenko, Vasyl O. and Metzler, Ralf}, title = {Molecular motors pulling cargos in the viscoelastic cytosol: how power strokes beat subdiffusion}, series = {Physical Chemistry Chemical Physics}, journal = {Physical Chemistry Chemical Physics}, number = {16}, publisher = {the Royal Society of Chemistry}, address = {Cambridge}, issn = {1463-9076}, pages = {16524 -- 16535}, year = {2014}, abstract = {The discovery of anomalous diffusion of larger biopolymers and submicron tracers such as endogenous granules, organelles, or virus capsids in living cells, attributed to the viscoelastic nature of the cytoplasm, provokes the question whether this complex environment equally impacts the active intracellular transport of submicron cargos by molecular motors such as kinesins: does the passive anomalous diffusion of free cargo always imply its anomalously slow active transport by motors, the mean transport distance along microtubule growing sublinearly rather than linearly in time? Here we analyze this question within the widely used two-state Brownian ratchet model of kinesin motors based on the continuous-state diffusion along microtubules driven by a flashing binding potential, where the cargo particle is elastically attached to the motor. Depending on the cargo size, the loading force, the amplitude of the binding potential, the turnover frequency of the molecular motor enzyme, and the linker stiffness we demonstrate that the motor transport may turn out either normal or anomalous, as indeed measured experimentally. We show how a highly efficient normal active transport mediated by motors may emerge despite the passive anomalous diffusion of the cargo, and study the intricate effects of the elastic linker. Under different, well specified conditions the microtubule-based motor transport becomes anomalously slow and thus significantly less efficient.}, language = {en} } @article{BauerGodecMetzler2014, author = {Bauer, Maximilian and Godec, Aljaž and Metzler, Ralf}, title = {Diffusion of finite-size particles in two-dimensional channels with random wall configurations}, series = {Physical chemistry, chemical physics : PCCP ; a journal of European chemical societies}, volume = {16}, journal = {Physical chemistry, chemical physics : PCCP ; a journal of European chemical societies}, number = {13}, publisher = {RSC Publications}, address = {Cambridge}, issn = {1463-9084}, doi = {10.1039/C3CP55160A}, pages = {6118 -- 6128}, year = {2014}, abstract = {Diffusion of chemicals or tracer molecules through complex systems containing irregularly shaped channels is important in many applications. Most theoretical studies based on the famed Fick-Jacobs equation focus on the idealised case of infinitely small particles and reflecting boundaries. In this study we use numerical simulations to consider the transport of finite-size particles through asymmetrical two-dimensional channels. Additionally, we examine transient binding of the molecules to the channel walls by applying sticky boundary conditions. We consider an ensemble of particles diffusing in independent channels, which are characterised by common structural parameters. We compare our results for the long-time effective diffusion coefficient with a recent theoretical formula obtained by Dagdug and Pineda [J. Chem. Phys., 2012, 137, 024107].}, language = {en} } @article{MetzlerBauerRasmussenetal.2015, author = {Metzler, Ralf and Bauer, Maximilian and Rasmussen, Emil S. and Lomholt, Michael A.}, title = {Real sequence effects on the search dynamics of transcription factors on DNA}, series = {Scientific Reports}, volume = {5}, journal = {Scientific Reports}, number = {10072}, publisher = {Nature Publishing Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/srep10072}, year = {2015}, abstract = {Recent experiments show that transcription factors (TFs) indeed use the facilitated diffusion mechanism to locate their target sequences on DNA in living bacteria cells: TFs alternate between sliding motion along DNA and relocation events through the cytoplasm. From simulations and theoretical analysis we study the TF-sliding motion for a large section of the DNA-sequence of a common E. coli strain, based on the two-state TF-model with a fast-sliding search state and a recognition state enabling target detection. For the probability to detect the target before dissociating from DNA the TF-search times self-consistently depend heavily on whether or not an auxiliary operator (an accessible sequence similar to the main operator) is present in the genome section. Importantly, within our model the extent to which the interconversion rates between search and recognition states depend on the underlying nucleotide sequence is varied. A moderate dependence maximises the capability to distinguish between the main operator and similar sequences. Moreover, these auxiliary operators serve as starting points for DNA looping with the main operator, yielding a spectrum of target detection times spanning several orders of magnitude. Auxiliary operators are shown to act as funnels facilitating target detection by TFs.}, language = {en} } @article{NoechelReddyWangetal.2015, author = {N{\"o}chel, Ulrich and Reddy, Chaganti Srinivasa and Wang, Ke and Cui, Jing and Zizak, Ivo and Behl, Marc and Kratz, Karl and Lendlein, Andreas}, title = {Nanostructural changes in crystallizable controlling units determine the temperature-memory of polymers}, series = {Journal of Materials Chemistry A, Materials for energy and sustainability}, volume = {16}, journal = {Journal of Materials Chemistry A, Materials for energy and sustainability}, number = {3}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {2050-7488}, doi = {10.1039/c4ta06586g}, pages = {8284 -- 8293}, year = {2015}, abstract = {Temperature-memory polymers remember the temperature, where they were deformed recently, enabled by broad thermal transitions. In this study, we explored a series of crosslinked poly[ethylene-co-(vinyl acetate)] networks (cPEVAs) comprising crystallizable polyethylene (PE) controlling units exhibiting a pronounced temperature-memory effect (TME) between 16 and 99 °C related to a broad melting transition (∼100 °C). The nanostructural changes in such cPEVAs during programming and activation of the TME were analyzed via in situ X-ray scattering and specific annealing experiments. Different contributions to the mechanism of memorizing high or low deformation temperatures (Tdeform) were observed in cPEVA, which can be associated to the average PE crystal sizes. At high deformation temperatures (>50 °C), newly formed PE crystals, which are established during cooling when fixing the temporary shape, dominated the TME mechanism. In contrast, at low Tdeform (<50 °C), corresponding to a cold drawing scenario, the deformation led preferably to a disruption of existing large crystals into smaller ones, which then fix the temporary shape upon cooling. The observed mechanism of memorizing a deformation temperature might enable the prediction of the TME behavior and the knowledge based design of other TMPs with crystallizable controlling units.}, language = {en} } @article{MetzlerCherstvyChechkinetal.2015, author = {Metzler, Ralf and Cherstvy, Andrey G. and Chechkin, Aleksei V. and Bodrova, Anna S.}, title = {Ultraslow scaled Brownian motion}, series = {New journal of physics : the open-access journal for physics}, volume = {17}, journal = {New journal of physics : the open-access journal for physics}, number = {063038}, publisher = {Dt. Physikalische Ges., IOP}, address = {Bad Honnef, London}, issn = {1367-2630}, doi = {10.1088/1367-2630/17/6/063038}, year = {2015}, abstract = {We define and study in detail utraslow scaled Brownian motion (USBM) characterized by a time dependent diffusion coefficient of the form . For unconfined motion the mean squared displacement (MSD) of USBM exhibits an ultraslow, logarithmic growth as function of time, in contrast to the conventional scaled Brownian motion. In a harmonic potential the MSD of USBM does not saturate but asymptotically decays inverse-proportionally to time, reflecting the highly non-stationary character of the process. We show that the process is weakly non-ergodic in the sense that the time averaged MSD does not converge to the regular MSD even at long times, and for unconfined motion combines a linear lag time dependence with a logarithmic term. The weakly non-ergodic behaviour is quantified in terms of the ergodicity breaking parameter. The USBM process is also shown to be ageing: observables of the system depend on the time gap between initiation of the test particle and start of the measurement of its motion. Our analytical results are shown to agree excellently with extensive computer simulations.}, language = {en} } @article{PulkkinenMetzler2015, author = {Pulkkinen, Otto and Metzler, Ralf}, title = {Variance-corrected Michaelis-Menten equation predicts transient rates of single-enzyme reactions and response times in bacterial gene-regulation}, series = {Scientific reports}, journal = {Scientific reports}, number = {5}, publisher = {Nature Publishing Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/srep17820}, year = {2015}, abstract = {Many chemical reactions in biological cells occur at very low concentrations of constituent molecules. Thus, transcriptional gene-regulation is often controlled by poorly expressed transcription-factors, such as E.coli lac repressor with few tens of copies. Here we study the effects of inherent concentration fluctuations of substrate-molecules on the seminal Michaelis-Menten scheme of biochemical reactions. We present a universal correction to the Michaelis-Menten equation for the reaction-rates. The relevance and validity of this correction for enzymatic reactions and intracellular gene-regulation is demonstrated. Our analytical theory and simulation results confirm that the proposed variance-corrected Michaelis-Menten equation predicts the rate of reactions with remarkable accuracy even in the presence of large non-equilibrium concentration fluctuations. The major advantage of our approach is that it involves only the mean and variance of the substrate-molecule concentration. Our theory is therefore accessible to experiments and not specific to the exact source of the concentration fluctuations.}, language = {en} } @article{GoychukGoychuk2015, author = {Goychuk, Igor and Goychuk, Andriy}, title = {Stochastic Wilson}, series = {New journal of physics}, volume = {17}, journal = {New journal of physics}, number = {4}, publisher = {Deutsche Physikalische Gesellschaft, Institute of Physics}, address = {Bad Honnef, London}, issn = {1367-2630}, doi = {10.1088/1367-2630/17/4/045029}, year = {2015}, abstract = {We consider a simple Markovian class of the stochastic Wilson-Cowan type models of neuronal network dynamics, which incorporates stochastic delay caused by the existence of a refractory period of neurons. From the point of view of the dynamics of the individual elements, we are dealing with a network of non-Markovian stochastic two-state oscillators with memory, which are coupled globally in a mean-field fashion. This interrelation of a higher-dimensional Markovian and lower-dimensional non-Markovian dynamics is discussed in its relevance to the general problem of the network dynamics of complex elements possessing memory. The simplest model of this class is provided by a three-state Markovian neuron with one refractory state, which causes firing delay with an exponentially decaying memory within the two-state reduced model. This basic model is used to study critical avalanche dynamics (the noise sustained criticality) in a balanced feedforward network consisting of the excitatory and inhibitory neurons. Such avalanches emerge due to the network size dependent noise (mesoscopic noise). Numerical simulations reveal an intermediate power law in the distribution of avalanche sizes with the critical exponent around -1.16. We show that this power law is robust upon a variation of the refractory time over several orders of magnitude. However, the avalanche time distribution is biexponential. It does not reflect any genuine power law dependence.}, language = {en} } @article{Schmidt2015, author = {Schmidt, Joachim}, title = {Die Arbeit bei irreversibler Druck-Volumen-{\"A}nderung}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-74931}, year = {2015}, abstract = {For the calculation of the work in an irreversible pressure-volume change, we propose approxima-tions, which in contrast to the usual representation in the literature reflect the work performed during expansion and compression symmetrically. The calculations are based on the Reversible-Share-Theorem: Is used the force to overcome for calculating the work, so it captures only the configurational reversible work share.}, language = {de} } @article{GhoshCherstvyPetrovetal.2016, author = {Ghosh, Surya K. and Cherstvy, Andrey G. and Petrov, Eugene P. and Metzler, Ralf}, title = {Interactions of rod-like particles on responsive elastic sheets}, series = {Soft matter}, journal = {Soft matter}, publisher = {RSC}, address = {London}, issn = {1744-6848}, doi = {10.1039/C6SM01522K}, year = {2016}, abstract = {What are the physical laws of the mutual interactions of objects bound to cell membranes, such as various membrane proteins or elongated virus particles? To rationalise this, we here investigate by extensive computer simulations mutual interactions of rod-like particles adsorbed on the surface of responsive elastic two-dimensional sheets. Specifically, we quantify sheet deformations as a response to adhesion of such filamentous particles. We demonstrate that tip-to-tip contacts of rods are favoured for relatively soft sheets, while side-by-side contacts are preferred for stiffer elastic substrates. These attractive orientation-dependent substrate-mediated interactions between the rod-like particles on responsive sheets can drive their aggregation and self-assembly. The optimal orientation of the membrane-bound rods is established via responding to the elastic energy profiles created around the particles. We unveil the phase diagramme of attractive-repulsive rod-rod interactions in the plane of their separation and mutual orientation. Applications of our results to other systems featuring membrane-associated particles are also discussed.}, language = {en} } @article{SchildeKellingUmbreenetal.2016, author = {Schilde, Uwe and Kelling, Alexandra and Umbreen, Sumaira and Linker, Torsten}, title = {Crystal structures of three bicyclic carbohydrate derivatives}, series = {Acta crystallographica Section E ; Crystallographic communications}, volume = {72}, journal = {Acta crystallographica Section E ; Crystallographic communications}, number = {12}, publisher = {IUCR}, address = {Chester}, issn = {2056-9890}, doi = {10.1107/S2056989016018727}, pages = {1839 -- 1844}, year = {2016}, abstract = {The title compounds, [(1R,3R,4R,5R,6S)-4,5-bis(acetyloxy)-7-oxo-2-oxabicyclo- [4.2.0]octan-3-yl]methyl acetate, C14H18O8, (I), [(1S,4R,5S,6R)-5-acetyloxy-7- hydroxyimino-2-oxobicyclo[4.2.0]octan-4-yl acetate, C11H15NO6, (II), and [(3aR,5R,6R,7R,7aS)-6,7-bis(acetyloxy)-2-oxooctahydropyrano[3,2-b]pyrrol-5- yl]methyl acetate, C14H19NO8, (III), are stable bicyclic carbohydrate derivatives. They can easily be synthesized in a few steps from commercially available glycals. As a result of the ring strain from the four-membered rings in (I) and (II), the conformations of the carbohydrates deviate strongly from the ideal chair form. Compound (II) occurs in the boat form. In the five-membered lactam (III), on the other hand, the carbohydrate adopts an almost ideal chair conformation. As a result of the distortion of the sugar rings, the configurations of the three bicyclic carbohydrate derivatives could not be determined from their NMR coupling constants. From our three crystal structure determinations, we were able to establish for the first time the absolute configurations of all new stereocenters of the carbohydrate rings.}, language = {en} } @article{deCarvalhoMetzlerCherstvy2016, author = {de Carvalho, Sidney J. and Metzler, Ralf and Cherstvy, Andrey G.}, title = {Critical adsorption of polyelectrolytes onto planar and convex highly charged surfaces}, series = {New journal of physics : the open-access journal for physics}, volume = {18}, journal = {New journal of physics : the open-access journal for physics}, publisher = {IOP Publ.}, address = {London}, issn = {1367-2630}, doi = {10.1088/1367-2630/18/8/083037}, year = {2016}, abstract = {We study the adsorption-desorption transition of polyelectrolyte chains onto planar, cylindrical and spherical surfaces with arbitrarily high surface charge densities by massive Monte Carlo computer simulations. We examine in detail how the well known scaling relations for the threshold transition—demarcating the adsorbed and desorbed domains of a polyelectrolyte near weakly charged surfaces—are altered for highly charged interfaces. In virtue of high surface potentials and large surface charge densities, the Debye-H{\"u}ckel approximation is often not feasible and the nonlinear Poisson-Boltzmann approach should be implemented. At low salt conditions, for instance, the electrostatic potential from the nonlinear Poisson-Boltzmann equation is smaller than the Debye-H{\"u}ckel result, such that the required critical surface charge density for polyelectrolyte adsorption σc increases. The nonlinear relation between the surface charge density and electrostatic potential leads to a sharply increasing critical surface charge density with growing ionic strength, imposing an additional limit to the critical salt concentration above which no polyelectrolyte adsorption occurs at all. We contrast our simulations findings with the known scaling results for weak critical polyelectrolyte adsorption onto oppositely charged surfaces for the three standard geometries. Finally, we discuss some applications of our results for some physical-chemical and biophysical systems.}, language = {en} } @article{RaetzelWilkensMenzel2016, author = {R{\"a}tzel, Dennis and Wilkens, Martin and Menzel, Ralf}, title = {Gravitational properties of light}, series = {New journal of physics : the open-access journal for physics}, volume = {18}, journal = {New journal of physics : the open-access journal for physics}, publisher = {IOP Science}, address = {London}, issn = {1367-2630}, doi = {10.1088/1367-2630/18/2/023009}, pages = {1 -- 16}, year = {2016}, abstract = {The gravitational field of a laser pulse of finite lifetime, is investigated in the framework of linearized gravity. Although the effects are very small, they may be of fundamental physical interest. It is shown that the gravitational field of a linearly polarized light pulse is modulated as the norm of the corresponding electric field strength, while no modulations arise for circular polarization. In general, the gravitational field is independent of the polarization direction. It is shown that all physical effects are confined to spherical shells expanding with the speed of light, and that these shells are imprints of the spacetime events representing emission and absorption of the pulse. Nearby test particles at rest are attracted towards the pulse trajectory by the gravitational field due to the emission of the pulse, and they are repelled from the pulse trajectory by the gravitational field due to its absorption. Examples are given for the size of the attractive effect. It is recovered that massless test particles do not experience any physical effect if they are co-propagating with the pulse, and that the acceleration of massless test particles counter-propagating with respect to the pulse is four times stronger than for massive particles at rest. The similarities between the gravitational effect of a laser pulse and Newtonian gravity in two dimensions are pointed out. The spacetime curvature close to the pulse is compared to that induced by gravitational waves from astronomical sources.}, language = {en} } @article{ReindlRauchMillerBertolamietal.2016, author = {Reindl, Nicole and Rauch, Thomas and Miller Bertolami, Marcelo Miguel and Todt, Helge Tobias and Werner, K.}, title = {Breaking news from the HST}, series = {Monthly notices of the Royal Astronomical Society}, volume = {464}, journal = {Monthly notices of the Royal Astronomical Society}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {0035-8711}, doi = {10.1093/mnrasl/slw175}, pages = {L51 -- L55}, year = {2016}, abstract = {SAO 244567 is a rare example of a star that allows us to witness stellar evolution in real time. Between 1971 and 1990, it changed from a B-type star into the hot central star of the Stingray Nebula. This observed rapid heating has been a mystery for decades, since it is in strong contradiction with the low mass of the star and canonical post-asymptotic giant branch (AGB) evolution. We speculated that SAO 244567 might have suffered from a late thermal pulse (LTP) and obtained new observations with Hubble Space Telescope (HST)/COS to follow the evolution of the surface properties of SAO 244567 and to verify the LTP hypothesis. Our non-LTE spectral analysis reveals that the star cooled significantly since 2002 and that its envelope is now expanding. Therefore, we conclude that SAO 244567 is currently on its way back towards the AGB, which strongly supports the LTP hypothesis. A comparison with state-of-the-art LTP evolutionary calculations shows that these models cannot fully reproduce the evolution of all surface parameters simultaneously, pointing out possible shortcomings of stellar evolution models. Thereby, SAO 244567 keeps on challenging stellar evolution theory and we highly encourage further investigations.}, language = {en} } @article{BodrovaChechkinCherstvyetal.2016, author = {Bodrova, Anna S. and Chechkin, Aleksei V. and Cherstvy, Andrey G. and Safdari, Hadiseh and Sokolov, Igor M. and Metzler, Ralf}, title = {Underdamped scaled Brownian motion}, series = {Scientific reports}, volume = {6}, journal = {Scientific reports}, publisher = {Nature Publishing Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/srep30520}, year = {2016}, abstract = {It is quite generally assumed that the overdamped Langevin equation provides a quantitative description of the dynamics of a classical Brownian particle in the long time limit. We establish and investigate a paradigm anomalous diffusion process governed by an underdamped Langevin equation with an explicit time dependence of the system temperature and thus the diffusion and damping coefficients. We show that for this underdamped scaled Brownian motion (UDSBM) the overdamped limit fails to describe the long time behaviour of the system and may practically even not exist at all for a certain range of the parameter values. Thus persistent inertial effects play a non-negligible role even at significantly long times. From this study a general questions on the applicability of the overdamped limit to describe the long time motion of an anomalously diffusing particle arises, with profound consequences for the relevance of overdamped anomalous diffusion models. We elucidate our results in view of analytical and simulations results for the anomalous diffusion of particles in free cooling granular gases.}, language = {en} } @article{FeldmannMaduarSanteretal.2016, author = {Feldmann, David and Maduar, Salim R. and Santer, Mark and Lomadze, Nino and Vinogradova, Olga I. and Santer, Svetlana}, title = {Manipulation of small particles at solid liquid interface}, series = {Scientific reports}, volume = {6}, journal = {Scientific reports}, publisher = {Nature Publishing Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/srep36443}, pages = {10}, year = {2016}, abstract = {The strong adhesion of sub-micron sized particles to surfaces is a nuisance, both for removing contaminating colloids from surfaces and for conscious manipulation of particles to create and test novel micro/nano-scale assemblies. The obvious idea of using detergents to ease these processes suffers from a lack of control: the action of any conventional surface-modifying agent is immediate and global. With photosensitive azobenzene containing surfactants we overcome these limitations. Such photo-soaps contain optical switches (azobenzene molecules), which upon illumination with light of appropriate wavelength undergo reversible trans-cis photo-isomerization resulting in a subsequent change of the physico-chemical molecular properties. In this work we show that when a spatial gradient in the composition of trans- and cis- isomers is created near a solid-liquid interface, a substantial hydrodynamic flow can be initiated, the spatial extent of which can be set, e.g., by the shape of a laser spot. We propose the concept of light induced diffusioosmosis driving the flow, which can remove, gather or pattern a particle assembly at a solid-liquid interface. In other words, in addition to providing a soap we implement selectivity: particles are mobilized and moved at the time of illumination, and only across the illuminated area.}, language = {en} } @article{SchickEckertPontiusetal.2016, author = {Schick, Daniel and Eckert, Sebastian and Pontius, Niko and Mitzner, Rolf and F{\"o}hlisch, Alexander and Holldack, Karsten and Sorgenfrei, Nomi}, title = {Versatile soft X-ray-optical cross-correlator for ultrafast applications}, series = {Structural dynamics}, volume = {3}, journal = {Structural dynamics}, publisher = {American Institute of Physics}, address = {Melville}, issn = {2329-7778}, doi = {10.1063/1.4964296}, pages = {054304-1 -- 054304-8}, year = {2016}, abstract = {We present an X-ray-optical cross-correlator for the soft (> 150 eV) up to the hard X-ray regime based on a molybdenum-silicon superlattice. The cross-correlation is done by probing intensity and position changes of superlattice Bragg peaks caused by photoexcitation of coherent phonons. This approach is applicable for a wide range of X-ray photon energies as well as for a broad range of excitation wavelengths and requires no external fields or changes of temperature. Moreover, the cross-correlator can be employed on a 10 ps or 100 fs time scale featuring up to 50\% total X-ray reflectivity and transient signal changes of more than 20\%. (C) 2016 Author(s).}, language = {en} } @article{ReppertPuddellKocetal.2016, author = {Reppert, Alexander von and Puddell, J. and Koc, A. and Reinhardt, M. and Leitenberger, Wolfram and Dumesnil, K. and Zamponi, Flavio and Bargheer, Matias}, title = {Persistent nonequilibrium dynamics of the thermal energies in the spin and phonon systems of an antiferromagnet}, series = {Structural dynamics}, volume = {3}, journal = {Structural dynamics}, publisher = {AIP Publishing LLC}, address = {Melville, NY}, issn = {2329-7778}, doi = {10.1063/1.4961253}, year = {2016}, abstract = {We present a temperature and fluence dependent Ultrafast X-Ray Diffraction study of a laser-heated antiferromagnetic dysprosium thin film. The loss of antiferromagnetic order is evidenced by a pronounced lattice contraction. We devise a method to determine the energy flow between the phonon and spin system from calibrated Bragg peak positions in thermal equilibrium. Reestablishing the magnetic order is much slower than the cooling of the lattice, especially around the N{\´e}el temperature. Despite the pronounced magnetostriction, the transfer of energy from the spin system to the phonons in Dy is slow after the spin-order is lost.}, language = {en} } @article{StangeHintscheSachseetal.2017, author = {Stange, Maike and Hintsche, Marius and Sachse, Kirsten and Gerhardt, Matthias and Valleriani, Angelo and Beta, Carsten}, title = {Analyzing the spatial positioning of nuclei in polynuclear giant cells}, series = {Journal of Physics D: Applied Physics}, volume = {50}, journal = {Journal of Physics D: Applied Physics}, number = {46}, publisher = {IOP Publ. Ltd.}, address = {Bristol}, issn = {0022-3727}, doi = {10.1088/1361-6463/aa8da0}, pages = {8}, year = {2017}, abstract = {How cells establish and maintain a well-defined size is a fundamental question of cell biology. Here we investigated to what extent the microtubule cytoskeleton can set a predefined cell size, independent of an enclosing cell membrane. We used electropulse-induced cell fusion to form giant multinuclear cells of the social amoeba Dictyostelium discoideum. Based on dual-color confocal imaging of cells that expressed fluorescent markers for the cell nucleus and the microtubules, we determined the subcellular distributions of nuclei and centrosomes in the giant cells. Our two- and three-dimensional imaging results showed that the positions of nuclei in giant cells do not fall onto a regular lattice. However, a comparison with model predictions for random positioning showed that the subcellular arrangement of nuclei maintains a low but still detectable degree of ordering. This can be explained by the steric requirements of the microtubule cytoskeleton, as confirmed by the effect of a microtubule degrading drug.}, language = {en} } @article{KurzkeKietheHeueretal.2017, author = {Kurzke, Henning and Kiethe, Jan and Heuer, Axel and Jechow, Andreas}, title = {Frequency doubling of incoherent light from a superluminescent diode in a periodically poled lithium niobate waveguide crystal}, series = {Laser physics letters}, volume = {14}, journal = {Laser physics letters}, publisher = {IOP Publ.}, address = {Bristol}, issn = {1612-2011}, doi = {10.1088/1612-202X/aa6889}, pages = {5}, year = {2017}, abstract = {The amplified spontaneous emission from a superluminescent diode was frequency doubled in a periodically poled lithium niobate waveguide crystal. The temporally incoherent radiation of such a superluminescent diode is characterized by a relatively broad spectral bandwidth and thermal-like photon statistics, as the measured degree of second order coherence, g((2))(0)= 1.9 +/- 0.1, indicates. Despite the non-optimized scenario in the spectral domain, we achieve six orders of magnitude higher conversion efficiency than previously reported with truly incoherent light. This is possible by using single spatial mode radiation and quasi phase matched material with a waveguide architecture. This work is a principle step towards efficient frequency conversion of temporally incoherent radiation in one spatial mode to access wavelengths where no radiation from superluminescent diodes is available, especially with tailored quasi phase matched crystals. The frequency doubled light might find application in imaging, metrology and quantum optics experiments.}, language = {en} } @article{KamannHusserDreizleretal.2017, author = {Kamann, Sebastian and Husser, T. -O. and Dreizler, S. and Emsellem, E. and Weilbacher, Peter Michael and Martens, S. and Bacon, R. and den Brok, M. and Giesers, B. and Krajnovic, Davor and Roth, Martin M. and Wendt, Martin and Wisotzki, Lutz}, title = {A stellar census in globular clusters with MUSE}, series = {Monthly notices of the Royal Astronomical Society}, volume = {473}, journal = {Monthly notices of the Royal Astronomical Society}, number = {4}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {0035-8711}, doi = {10.1093/mnras/stx2719}, pages = {5591 -- 5616}, year = {2017}, abstract = {This is the first of a series of papers presenting the results from our survey of 25 Galactic globular clusters with the MUSE integral-field spectrograph. In combination with our dedicated algorithm for source deblending, MUSE provides unique multiplex capabilities in crowded stellar fields and allows us to acquire samples of up to 20 000 stars within the half-light radius of each cluster. The present paper focuses on the analysis of the internal dynamics of 22 out of the 25 clusters, using about 500 000 spectra of 200 000 individual stars. Thanks to the large stellar samples per cluster, we are able to perform a detailed analysis of the central rotation and dispersion fields using both radial profiles and two-dimensional maps. The velocity dispersion profiles we derive show a good general agreement with existing radial velocity studies but typically reach closer to the cluster centres. By comparison with proper motion data, we derive or update the dynamical distance estimates to 14 clusters. Compared to previous dynamical distance estimates for 47 Tuc, our value is in much better agreement with other methods. We further find significant (>3 sigma) rotation in the majority (13/22) of our clusters. Our analysis seems to confirm earlier findings of a link between rotation and the ellipticities of globular clusters. In addition, we find a correlation between the strengths of internal rotation and the relaxation times of the clusters, suggesting that the central rotation fields are relics of the cluster formation that are gradually dissipated via two-body relaxation.}, language = {en} } @article{HaniSparreEllisonetal.2017, author = {Hani, Maan H. and Sparre, Martin and Ellison, Sara L. and Torrey, Paul and Vogelsberger, Mark}, title = {Galaxy mergers moulding the circum-galactic medium}, series = {Monthly notices of the Royal Astronomical Society}, volume = {475}, journal = {Monthly notices of the Royal Astronomical Society}, number = {1}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {0035-8711}, doi = {10.1093/mnras/stx3252}, pages = {1160 -- 1176}, year = {2017}, abstract = {Galaxies are surrounded by sizeable gas reservoirs which host a significant amount of metals: the circum-galactic medium (CGM). The CGM acts as a mediator between the galaxy and the extragalactic medium. However, our understanding of how galaxy mergers, a major evolutionary transformation, impact the CGM remains deficient. We present a theoretical study of the effect of galaxy mergers on the CGM. We use hydrodynamical cosmological zoom-in simulations of a major merger selected from the Illustris project such that the z = 0 descendant has a halo mass and stellar mass comparable to the Milky Way. To study the CGM we then re-simulated this system at a 40 times better mass resolution, and included detailed post-processing ionization modelling. Our work demonstrates the effect the merger has on the characteristic size of the CGM, its metallicity, and the predicted covering fraction of various commonly observed gas-phase species, such as H I, C IV, and O VI. We show that merger-induced outflows can increase the CGM metallicity by 0.2-0.3 dex within 0.5 Gyr post-merger. These effects last up to 6 Gyr post-merger. While the merger increases the total metal covering fractions by factors of 2-3, the covering fractions of commonly observed UV ions decrease due to the hard ionizing radiation from the active galactic nucleus, which we model explicitly. Our study of the single simulated major merger presented in this work demonstrates the significant impact that a galaxy interaction can have on the size, metallicity, and observed column densities of the CGM.}, language = {en} } @article{BetaKruse2017, author = {Beta, Carsten and Kruse, Karsten}, title = {Intracellular oscillations and waves}, series = {Annual review of condensed matter physics}, volume = {8}, journal = {Annual review of condensed matter physics}, publisher = {Annual Reviews}, address = {Palo Alto}, isbn = {978-0-8243-5008-6}, issn = {1947-5454}, doi = {10.1146/annurev-conmatphys-031016-025210}, pages = {239 -- 264}, year = {2017}, abstract = {Dynamic processes in living cells are highly organized in space and time. Unraveling the underlying molecular mechanisms of spatiotemporal pattern formation remains one of the outstanding challenges at the interface between physics and biology. A fundamental recurrent pattern found in many different cell types is that of self-sustained oscillations. They are involved in a wide range of cellular functions, including second messenger signaling, gene expression, and cytoskeletal dynamics. Here, we review recent developments in the field of cellular oscillations and focus on cases where concepts from physics have been instrumental for understanding the underlying mechanisms. We consider biochemical and genetic oscillators as well as oscillations that arise from chemo-mechanical coupling. Finally, we highlight recent studies of intracellular waves that have increasingly moved into the focus of this research field.}, language = {en} } @article{MardoukhiMardoukhiHokkaetal.2017, author = {Mardoukhi, Ahmad and Mardoukhi, Yousof and Hokka, Mikko and Kuokkala, Veli-Tapani}, title = {Effects of strain rate and surface cracks on the mechanical behaviour of Balmoral Red granite}, series = {Philosophical Transactions of the Royal Society of London, Series A : Mathematical, Physical and Engineering Sciences}, volume = {375}, journal = {Philosophical Transactions of the Royal Society of London, Series A : Mathematical, Physical and Engineering Sciences}, number = {2085}, publisher = {Royal Society}, address = {London}, issn = {1364-503X}, doi = {10.1098/rsta.2016.0179}, pages = {11}, year = {2017}, abstract = {This work presents a systematic study on the effects of strain rate and surface cracks on the mechanical properties and behaviour of Balmoral Red granite. The tensile behaviour of the rock was studied at low and high strain rates using Brazilian disc samples. Heat shocks were used to produce samples with different amounts of surface cracks. The surface crack patterns were analysed using optical microscopy, and the complexity of the patterns was quantified by calculating the fractal dimensions of the patterns. The strength of the rock clearly drops as a function of increasing fractal dimensions in the studied strain rate range. However, the dynamic strength of the rock drops significantly faster than the quasi-static strength, and, because of this, also the strain rate sensitivity of the rock decreases with increasing fractal dimensions. This can be explained by the fracture behaviour and fragmentation during the dynamic loading, which is more strongly affected by the heat shock than the fragmentation at low strain rates.}, language = {en} } @article{AhnenAnsoldiAntonellietal.2017, author = {Ahnen, M. L. and Ansoldi, S. and Antonelli, L. A. and Antoranz, P. and Babic, A. and Banerjee, B. and Bangale, P. and de Almeida, U. Barres and Barrio, J. A. and Gonzalez, J. Becerra and Bednarek, W. and Bernardini, E. and Berti, A. and Biasuzzi, B. and Biland, A. and Blanch, O. and Bonnefoy, S. and Bonnoli, G. and Borracci, F. and Bretz, T. and Buson, S. and Carosi, A. and Chatterjee, A. and Clavero, R. and Colin, P. and Colombo, E. and Contreras, J. L. and Cortina, J. and Covino, S. and Da Vela, P. and Dazzi, F. and De Angelis, A. and De Lotto, B. and Wilhelmi, E. de Ona and Di Pierro, F. and Doert, M. and Dominguez, A. and Prester, D. Dominis and Dorner, D. and Doro, M. and Einecke, S. and Glawion, D. Eisenacher and Elsaesser, D. and Engelkemeier, M. and Ramazani, V. Fallah and Fernandez-Barral, A. and Fidalgo, D. and Fonseca, M. V. and Font, L. and Frantzen, K. and Fruck, C. and Galindo, D. and Lopez, R. J. Garcia and Garczarczyk, M. and Terrats, D. Garrido and Gaug, M. and Giammaria, P. and Godinovic, N. and Gonzalez Munoz, A. and Gora, D. and Guberman, D. and Hadasch, D. and Hahn, A. and Hanabata, Y. and Hayashida, M. and Herrera, J. and Hose, J. and Hrupec, D. and Hughes, G. and Idec, W. and Kodani, K. and Konno, Y. and Kubo, H. and Kushida, J. and La Barbera, A. and Lelas, D. and Lindfors, E. and Lombardi, S. and Longo, F. and Lopez, M. and Lopez-Coto, R. and Majumdar, P. and Makariev, M. and Mallot, K. and Maneva, G. and Manganaro, M. and Mannheim, K. and Maraschi, L. and Marcote, B. and Mariotti, M. and Martinez, M. and Mazin, D. and Menzel, U. and Miranda, J. M. and Mirzoyan, R. and Moralejo, A. and Moretti, E. and Nakajima, D. and Neustroev, V. and Niedzwiecki, A. and Rosillo, M. Nievas and Nilsson, K. and Nishijima, K. and Noda, K. and Nogues, L. and Overkemping, A. and Paiano, S. and Palacio, J. and Palatiello, M. and Paneque, D. and Paoletti, R. and Paredes, J. M. and Paredes-Fortuny, X. and Pedaletti, G. and Peresano, M. and Perri, L. and Persic, M. and Poutanen, J. and Moroni, P. G. Prada and Prandini, E. and Puljak, I. and Reichardt, I. and Rhode, W. and Ribo, M. and Rico, J. and Rodriguez Garcia, J. and Saito, T. and Satalecka, K. and Schroder, S. and Schultz, C. and Schweizer, T. and Shore, S. N. and Sillanpaa, A. and Sitarek, J. and Snidaric, I. and Sobczynska, D. and Stamerra, A. and Steinbring, T. and Strzys, M. and Suric, T. and Takalo, L. and Tavecchio, F. and Temnikov, P. and Terzic, T. and Tescaro, D. and Teshima, M. and Thaele, J. and Torres, D. F. and Toyama, T. and Treves, A. and Vanzo, G. and Verguilov, V. and Vovk, I. and Ward, J. E. and Will, M. and Wu, M. H. and Zanin, R. and Abeysekara, A. U. and Archambault, S. and Archer, A. and Benbow, W. and Bird, R. and Buchovecky, M. and Buckley, J. H. and Bugaev, V. and Connolly, M. P. and Cui, W. and Dickinson, H. J. and Falcone, A. and Feng, Q. and Finley, J. P. and Fleischhack, H. and Flinders, A. and Fortson, L. and Gillanders, G. H. and Griffin, S. and Grube, J. and Huetten, M. and Hanna, D. and Holder, J. and Humensky, T. B. and Kaaret, P. and Kar, P. and Kelley-Hoskins, N. and Kertzman, M. and Kieda, D. and Krause, M. and Krennrich, F. and Lang, M. J. and Maier, G. and McCann, A. and Moriarty, P. and Mukherjee, R. and Nieto, D. and Ong, R. A. and Otte, N. and Park, N. and Perkins, J. and Pichel, A. and Pohl, M. and Popkow, A. and Pueschel, Elisa and Quinn, J. and Ragan, K. and Reynolds, P. T. and Richards, G. T. and Roache, E. and Rovero, A. C. and Rulten, C. and Sadeh, I. and Santander, M. and Sembroski, G. H. and Shahinyan, K. and Telezhinsky, Igor O. and Tucci, J. V. and Tyler, J. and Wakely, S. P. and Weinstein, A. and Wilcox, P. and Wilhelm, Alina and Williams, D. A. and Zitzer, B. and Razzaque, S. and Villata, M. and Raiteri, C. M. and Aller, H. D. and Aller, M. F. and Larionov, V. M. and Arkharov, A. A. and Blinov, D. A. and Efimova, N. V. and Grishina, T. S. and Hagen-Thorn, V. A. and Kopatskaya, E. N. and Larionova, L. V. and Larionova, E. G. and Morozova, D. A. and Troitsky, I. S. and Ligustri, R. and Calcidese, P. and Berdyugin, A. and Kurtanidze, O. M. and Nikolashvili, M. G. and Kimeridze, G. N. and Sigua, L. A. and Kurtanidze, S. O. and Chigladze, R. A. and Chen, W. P. and Koptelova, E. and Sakamoto, T. and Sadun, A. C. and Moody, J. W. and Pace, C. and Pearson, R. and Yatsu, Y. and Mori, Y. and Carraminyana, A. and Carrasco, L. and de la Fuente, E. and Norris, J. P. and Smith, P. S. and Wehrle, A. and Gurwell, M. A. and Zook, A. and Pagani, C. and Perri, M. and Capalbi, M. and Cesarini, A. and Krimm, H. A. and Kovalev, Y. Y. and Kovalev, Yu. A. and Ros, E. and Pushkarev, A. B. and Lister, M. L. and Sokolovsky, K. V. and Kadler, M. and Piner, G. and Lahteenmaki, A. and Tornikoski, M. and Angelakis, E. and Krichbaum, T. P. and Nestoras, I. and Fuhrmann, L. and Zensus, J. A. and Cassaro, P. and Orlati, A. and Maccaferri, G. and Leto, P. and Giroletti, M. and Richards, J. L. and Max-Moerbeck, W. and Readhead, A. C. S.}, title = {Multiband variability studies and novel broadband SED modeling of Mrk 501 in 2009}, series = {Astronomy and astrophysics : an international weekly journal}, volume = {603}, journal = {Astronomy and astrophysics : an international weekly journal}, publisher = {EDP Sciences}, address = {Les Ulis}, organization = {MAGIC Collaboration;VERITAS Collaboration}, issn = {1432-0746}, doi = {10.1051/0004-6361/201629540}, pages = {30}, year = {2017}, abstract = {Aims. We present an extensive study of the BL Lac object Mrk 501 based on a data set collected during the multi-instrument campaign spanning from 2009 March 15 to 2009 August 1, which includes, among other instruments, MAGIC, VERITAS, Whipple 10 m, and Fermi-LAT to cover the gamma-ray range from 0.1 GeV to 20 TeV; RXTE and Swift to cover wavelengths from UV to hard X-rays; and GASP-WEBT, which provides coverage of radio and optical wavelengths. Optical polarization measurements were provided for a fraction of the campaign by the Steward and St. Petersburg observatories. We evaluate the variability of the source and interband correlations, the gamma-ray flaring activity occurring in May 2009, and interpret the results within two synchrotron self-Compton (SSC) scenarios. Methods. The multiband variability observed during the full campaign is addressed in terms of the fractional variability, and the possible correlations are studied by calculating the discrete correlation function for each pair of energy bands where the significance was evaluated with dedicated Monte Carlo simulations. The space of SSC model parameters is probed following a dedicated grid-scan strategy, allowing for a wide range of models to be tested and offering a study of the degeneracy of model-to-data agreement in the individual model parameters, hence providing a less biased interpretation than the "single-curve SSC model adjustment" typically reported in the literature. Results. We find an increase in the fractional variability with energy, while no significant interband correlations of flux changes are found on the basis of the acquired data set. The SSC model grid-scan shows that the flaring activity around May 22 cannot be modeled adequately with a one-zone SSC scenario (using an electron energy distribution with two breaks), while it can be suitably described within a two (independent) zone SSC scenario. Here, one zone is responsible for the quiescent emission from the averaged 4.5-month observing period, while the other one, which is spatially separated from the first, dominates the flaring emission occurring at X-rays and very-high-energy (> 100 GeV, VHE) gamma-rays. The flaring activity from May 1, which coincides with a rotation of the electric vector polarization angle (EVPA), cannot be satisfactorily reproduced by either a one-zone or a two-independent-zone SSC model, yet this is partially affected by the lack of strictly simultaneous observations and the presence of large flux changes on sub-hour timescales (detected at VHE gamma rays). Conclusions. The higher variability in the VHE emission and lack of correlation with the X-ray emission indicate that, at least during the 4.5-month observing campaign in 2009, the highest energy (and most variable) electrons that are responsible for the VHE gamma rays do not make a dominant contribution to the similar to 1 keV emission. Alternatively, there could be a very variable component contributing to the VHE gamma-ray emission in addition to that coming from the SSC scenario. The studies with our dedicated SSC grid-scan show that there is some degeneracy in both the one-zone and the two-zone SSC scenarios probed, with several combinations of model parameters yielding a similar model-to-data agreement, and some parameters better constrained than others. The observed gamma-ray flaring activity, with the EVPA rotation coincident with the first gamma-ray flare, resembles those reported previously for low frequency peaked blazars, hence suggesting that there are many similarities in the flaring mechanisms of blazars with different jet properties.}, language = {en} } @article{XiongMignoletFangetal.2017, author = {Xiong, Hui and Mignolet, Benoit and Fang, Li and Osipov, Timur and Wolf, Thomas J. A. and Sistrunk, Emily and G{\"u}hr, Markus and Remacle, Francoise and Berrah, Nora}, title = {The Role of Super-Atom Molecular Orbitals in Doped Fullerenes in a Femtosecond Intense Laser Field}, series = {Scientific reports}, volume = {7}, journal = {Scientific reports}, publisher = {Nature Publ. Group}, address = {London}, issn = {2045-2322}, doi = {10.1038/s41598-017-00124-9}, pages = {8}, year = {2017}, abstract = {The interaction of gas phase endohedral fullerene Ho3N@C-80 with intense (0.1-5 x 10(14) W/cm(2)), short (30 fs), 800 nm laser pulses was investigated. The power law dependence of Ho3N@C-80(q+), q = 1-2, was found to be different from that of C-60. Time-dependent density functional theory computations revealed different light-induced ionization mechanisms. Unlike in C-60, in doped fullerenes, the breaking of the cage spherical symmetry makes super atomic molecular orbital (SAMO) states optically active. Theoretical calculations suggest that the fast ionization of the SAMO states in Ho3N@C-80 is responsible for the n = 3 power law for singly charged parent molecules at intensities lower than 1.2 x 10(14) W/cm(2).}, language = {en} } @article{ArchambaultArcherBenbowetal.2017, author = {Archambault, S. and Archer, A. and Benbow, W. and Bird, R. and Bourbeau, E. and Brantseg, T. and Buchovecky, M. and Buckley, J. H. and Bugaev, V. and Byrum, K. and Cerruti, M. and Christiansen, J. L. and Connolly, M. P. and Cui, W. and Daniel, M. K. and Feng, Q. and Finley, J. P. and Fleischhack, H. and Fortson, L. and Furniss, A. and Geringer-Sameth, A. and Griffin, S. and Grube, J. and H{\"u}tten, M. and Hakansson, N. and Hanna, D. and Hervet, O. and Holder, J. and Hughes, G. and Hummensky, B. and Johnson, C. A. and Kaaret, P. and Kar, P. and Kelley-Hoskins, N. and Kertzman, M. and Kieda, D. and Koushiappas, S. and Krause, M. and Krennrich, F. and Lang, M. J. and Lin, T. T. Y. and McArthur, S. and Moriarty, P. and Mukherjee, R. and Nieto, D. and Ong, R. A. and Otte, A. N. and Park, N. and Pohl, M. and Popkow, A. and Pueschel, Elisa and Quinn, J. and Ragan, K. and Reynolds, P. T. and Richards, G. T. and Roache, E. and Rulten, C. and Sadeh, I. and Santander, M. and Sembroski, G. H. and Shahinyan, K. and Smith, A. W. and Staszak, D. and Telezhinsky, Igor O. and Trepanier, S. and Tucci, J. V. and Tyler, J. and Wakely, S. P. and Weinstein, A. and Wilcox, P. and Williams, D. A. and Zitzer, B.}, title = {Dark matter constraints from a joint analysis of dwarf Spheroidal galaxy observations with VERITAS}, series = {Physical review : D, Particles, fields, gravitation, and cosmology}, volume = {95}, journal = {Physical review : D, Particles, fields, gravitation, and cosmology}, number = {8}, publisher = {American Physical Society}, address = {College Park}, organization = {VERITAS Collaboration}, issn = {2470-0010}, doi = {10.1103/PhysRevD.95.082001}, pages = {14}, year = {2017}, abstract = {We present constraints on the annihilation cross section of weakly interacting massive particles dark matter based on the joint statistical analysis of four dwarf galaxies with VERITAS. These results are derived from an optimized photon weighting statistical technique that improves on standard imaging atmospheric Cherenkov telescope (IACT) analyses by utilizing the spectral and spatial properties of individual photon events. We report on the results of similar to 230 hours of observations of five dwarf galaxies and the joint statistical analysis of four of the dwarf galaxies. We find no evidence of gamma-ray emission from any individual dwarf nor in the joint analysis. The derived upper limit on the dark matter annihilation cross section from the joint analysis is 1.35 x 10(-23) cm(3) s(-1) at 1 TeV for the bottom quark (b (b) over bar) final state, 2.85 x 10(-24) cm(3) s(-1) at 1 TeV for the tau lepton (tau+tau(-)) final state and 1.32 x 10-25 cm(3) s(-1) at 1 TeV for the gauge boson (gamma gamma) final state.}, language = {en} } @article{LeussuUsoskinValliappanetal.2017, author = {Leussu, R. and Usoskin, IIlya G. and Valliappan, Senthamizh Pavai and Diercke, Andrea and Arlt, Rainer and Denker, Carsten and Mursula, K.}, title = {Wings of the butterfly}, series = {Astronomy and astrophysics : an international weekly journal}, volume = {599}, journal = {Astronomy and astrophysics : an international weekly journal}, publisher = {EDP Sciences}, address = {Les Ulis}, issn = {1432-0746}, doi = {10.1051/0004-6361/201629533}, pages = {8}, year = {2017}, abstract = {The spatio-temporal evolution of sunspot activity, the so-called Maunder butterfly diagram, has been continously available since 1874 using data from the Royal Greenwich Observatory, extended by SOON network data after 1976. Here we present a new extended butterfly diagram of sunspot group occurrence since 1826, using the recently digitized data from Schwabe (1826-1867) and Sporer (1866-1880). The wings of the diagram are separated using a recently developed method based on an analysis of long gaps in sunspot group occurrence in different latitude bands. We define characteristic latitudes, corresponding to the start, end, and the largest extent of the wings (the F, L, and H latitudes). The H latitudes (30 degrees-45 degrees) are highly significantly correlated with the strength of the wings (quantified by the total sum of the monthly numbers of sunspot groups). The F latitudes (20 degrees-30 degrees) depict a weak tendency, especially in the southern hemisphere, to follow the wing strength. The L latitudes (2 degrees-10 degrees) show no clear relation to the wing strength. Overall, stronger cycle wings tend to start at higher latitudes and have a greater wing extent. A strong (5-6)-cycle periodic oscillation is found in the start and end times of the wings and in the overlap and gaps between successive wings of one hemisphere. While the average wing overlap is zero in the southern hemisphere, it is two to three months in the north. A marginally significant oscillation of about ten solar cycles is found in the asymmetry of the L latitudes. The new long database of butterfly wings provides new observational constraints to solar dynamo models that discuss the spatio-temporal distribution of sunspot occurrence over the solar cycle and longer.}, language = {en} } @article{RaetzelWilkensMenzel2017, author = {R{\"a}tzel, Dennis and Wilkens, Martin and Menzel, Ralf}, title = {Effect of polarization entanglement in photon-photon scattering}, series = {Physical review : A, Atomic, molecular, and optical physics}, volume = {95}, journal = {Physical review : A, Atomic, molecular, and optical physics}, number = {1}, publisher = {American Physical Society}, address = {College Park}, issn = {2469-9926}, doi = {10.1103/PhysRevA.95.012101}, pages = {6}, year = {2017}, abstract = {It is found that the differential cross section of photon-photon scattering is a function of the degree of polarization entanglement of the two-photon state. A reduced general expression for the differential cross section of photon-photon scattering is derived by applying simple symmetry arguments. An explicit expression is obtained for the example of photon-photon scattering due to virtual electron-positron pairs in quantum electrodynamics. It is shown how the effect in this explicit example can be explained as an effect of quantum interference and that it fits with the idea of distance-dependent forces.}, language = {en} } @article{GongKlumpp2017, author = {Gong, Chen Chris and Klumpp, Stefan}, title = {Modeling sRNA-Regulated Plasmid Maintenance}, series = {PLoS one}, volume = {12}, journal = {PLoS one}, publisher = {PLoS}, address = {San Fransisco}, issn = {1932-6203}, doi = {10.1371/journal.pone.0169703}, pages = {19}, year = {2017}, abstract = {We study a theoretical model for the toxin-antitoxin (hok/sok) mechanism for plasmid maintenance in bacteria. Toxin-antitoxin systems enforce the maintenance of a plasmid through post-segregational killing of cells that have lost the plasmid. Key to their function is the tight regulation of expression of a protein toxin by an sRNA antitoxin. Here, we focus on the nonlinear nature of the regulatory circuit dynamics of the toxin-antitoxin mechanism. The mechanism relies on a transient increase in protein concentration rather than on the steady state of the genetic circuit. Through a systematic analysis of the parameter dependence of this transient increase, we confirm some known design features of this system and identify new ones: for an efficient toxin-antitoxin mechanism, the synthesis rate of the toxin's mRNA template should be lower that of the sRNA antitoxin, the mRNA template should be more stable than the sRNA antitoxin, and the mRNA-sRNA complex should be more stable than the sRNA antitoxin. Moreover, a short half-life of the protein toxin is also beneficial to the function of the toxin-antitoxin system. In addition, we study a therapeutic scenario in which a competitor mRNA is introduced to sequester the sRNA antitoxin, causing the toxic protein to be expressed.}, language = {en} } @article{FandrichBullerMemczaketal.2017, author = {Fandrich, Artur and Buller, Jens and Memczak, Henry and Stoecklein, W. and Hinrichs, K. and Wischerhoff, E. and Schulz, B. and Laschewsky, Andr{\´e} and Lisdat, Fred}, title = {Responsive Polymer-Electrode Interface-Study of its Thermo- and pH-Sensitivity and the Influence of Peptide Coupling}, series = {Electrochimica acta : the journal of the International Society of Electrochemistry (ISE)}, volume = {229}, journal = {Electrochimica acta : the journal of the International Society of Electrochemistry (ISE)}, publisher = {Elsevier}, address = {Oxford}, issn = {0013-4686}, doi = {10.1016/j.electacta.2017.01.080}, pages = {325 -- 333}, year = {2017}, abstract = {This study introduces a thermally responsive, polymer-based electrode system. The key component is a surface-attached, temperature-responsive poly(oligoethylene glycol) methacrylate (poly(OEGMA)) type polymer bearing photoreactive benzophenone and carboxy groups containing side chains. The responsive behavior of the polymer in aqueous media has been investigated by turbidimetry measurements. Polymer films are formed on gold substrates by means of the photoreactive 2(dicyclohexylphosphino)benzophenone (DPBP) through photocrosslinking. The electrochemical behavior of the resulting polymer-substrate interface has been investigated in buffered [Fe(CN)6](3-)/[Fe (CN)6](4-)solutions at room temperature and under temperature variation by cyclic voltammetry (CV). The CV experiments show that with increasing temperature structural changes of the polymer layer occur, which alter the output of the electrochemical measurement. Repeated heating/cooling cycles analyzed by CV measurements and pH changes analyzed by quartz crystal microbalance with dissipation monitoring (QCM-D) reveal the reversible nature of the restructuring process. The immobilized films are further modified by covalent coupling of two small biomolecules - a hydrophobic peptide and a more hydrophilic one. These attached components influence the hydrophobicity of the layer in a different way the resulting change of the temperature-caused behavior has been studied by CV indicating a different state of the polymer after coupling of the hydrophobic peptide.}, language = {en} } @article{ZachariasChenWagner2017, author = {Zacharias, Michael and Chen, Xuhui and Wagner, Stefan}, title = {Attenuation of TeV gamma-rays by the starlight photon field of the host galaxy}, series = {Monthly notices of the Royal Astronomical Society}, volume = {465}, journal = {Monthly notices of the Royal Astronomical Society}, number = {3}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {0035-8711}, doi = {10.1093/mnras/stw3032}, pages = {3767 -- 3774}, year = {2017}, abstract = {The absorption of TeV gamma-ray photons produced in relativistic jets by surrounding soft photon fields is a long-standing problem of jet physics. In some cases, the most likely emission site close to the central black hole is ruled out because of the high opacity caused by strong optical and infrared photon sources, such as the broad-line region. Mostly neglected for jet modelling is the absorption of gamma-rays in the starlight photon field of the host galaxy. Analysing the absorption for arbitrary locations and observation angles of the gamma-ray emission site within the host galaxy, we find that the distance to the galaxy centre, the observation angle, and the distribution of starlight in the galaxy are crucial for the amount of absorption. We derive the absorption value for a sample of 20 TeV-detected blazars with a redshift z(r) < 0.2. The absorption value of the gamma-ray emission located in the galaxy centre may be as high as 20 per cent, with an average value of 6 per cent. This is important in order to determine the intrinsic blazar parameters. We see no significant trends in our sample between the degree of absorption and host properties, such as starlight emissivity, galactic size, half-light radius, and redshift. While the uncertainty of the spectral properties of the extragalactic background light exceeds the effect of absorption by stellar light from the host galaxy in distant objects, the latter is a dominant effect in nearby sources. It may also be revealed in a differential comparison of sources with similar redshifts.}, language = {en} } @article{AnielskiBarbosaPfannesBeta2017, author = {Anielski, Alexander and Barbosa Pfannes, Eva Katharina and Beta, Carsten}, title = {Adaptive microfluidic gradient generator for quantitative chemotaxis experiments}, series = {Review of scientific instruments : a monthly journal devoted to scientific instruments, apparatus, and techniques}, volume = {88}, journal = {Review of scientific instruments : a monthly journal devoted to scientific instruments, apparatus, and techniques}, publisher = {American Institute of Physics}, address = {Melville}, issn = {0034-6748}, doi = {10.1063/1.4978535}, pages = {10}, year = {2017}, abstract = {Chemotactic motion in a chemical gradient is an essential cellular function that controls many processes in the living world. For a better understanding and more detailed modelling of the underlying mechanisms of chemotaxis, quantitative investigations in controlled environments are needed. We developed a setup that allows us to separately address the dependencies of the chemotactic motion on the average background concentration and on the gradient steepness of the chemoattractant. In particular, both the background concentration and the gradient steepness can be kept constant at the position of the cell while it moves along in the gradient direction. This is achieved by generating a well-defined chemoattractant gradient using flow photolysis. In this approach, the chemoattractant is released by a light-induced reaction from a caged precursor in a microfluidic flow chamber upstream of the cell. The flow photolysis approach is combined with an automated real-time cell tracker that determines changes in the cell position and triggers movement of the microscope stage such that the cell motion is compensated and the cell remains at the same position in the gradient profile. The gradient profile can be either determined experimentally using a caged fluorescent dye or may be alternatively determined by numerical solutions of the corresponding physical model. To demonstrate the function of this adaptive microfluidic gradient generator, we compare the chemotactic motion of Dictyostelium discoideum cells in a static gradient and in a gradient that adapts to the position of the moving cell. Published by AIP Publishing.}, language = {en} } @article{KoopmanNataliDonatietal.2017, author = {Koopman, Wouter-Willem Adriaan and Natali, Marco and Donati, Giovanni P. and Muccini, Michele and Toffanin, Stefano}, title = {Charge-exciton interaction rate in organic field-effect transistors by means of transient photoluminescence electromodulated spectroscopy}, series = {ACS photonics}, volume = {4}, journal = {ACS photonics}, number = {2}, publisher = {American Chemical Society}, address = {Washington, DC}, issn = {2330-4022}, doi = {10.1021/acsphotonics.6b00573}, pages = {282 -- 291}, year = {2017}, abstract = {Organic light-emitting transistors (OLETs) offer a huge potential for the design of highly integrated multifunctional optoelectronic systems and of intense nano scale light sources, such as the long-searched-for electrically pumped organic laser. In order to fulfill these promises, the efficiency and brightness of the current state-of-the-art devices have to be increased significantly. The dominating quenching process limiting the external quantum efficiency in OLETs is charge-exciton interaction. A comprehensive understanding of this quenching process is therefore of paramount importance. The present article reports a systematic investigation of charge-exciton interaction in organic transistors employing time resolved photoluminescence electro-modulation (PLEM) spectroscopy on the picosecond time scale. The results show that the injected charges reduce the exciton radiative recombination in two ways: (i) charges may prevent the generation of excitons and (ii) charges activate a further nonradiative channel for the exciton decay. Moreover, the transient PLEM measurements clearly reveal that not only trapped charges, as already reported in literature, but rather the entire injected charge density contributes to the quenching of the exciton population.}, language = {en} } @article{SundeGrijsSubramanianetal.2017, author = {Sun, Ning-Chen and de Grijs, Richard and Subramanian, Smitha and Cioni, Maria-Rosa L. and Rubele, Stefano and Bekki, Kenji and Ivanov, Valentin D. and Piatti, Andr{\´e}s E. and Ripepi, Vincenzo}, title = {The VMC Survey. XXII. Hierarchical star formation in the 30 Doradus-N158-N159-N160 star-forming complex}, series = {The astrophysical journal : an international review of spectroscopy and astronomical physics}, volume = {835}, journal = {The astrophysical journal : an international review of spectroscopy and astronomical physics}, number = {2}, publisher = {Institute of Physics Publ.}, address = {Bristol}, issn = {0004-637X}, doi = {10.3847/1538-4357/835/2/171}, pages = {10}, year = {2017}, abstract = {We study the hierarchical stellar structures in a similar to 1.5 deg(2) area covering the 30. Doradus-N158-N159-N160 starforming complex with the VISTA Survey of. Magellanic Clouds. Based on the young upper main-sequence stars, we find that the surface densities cover a wide range of values, from log(Sigma.pc(2))less than or similar to -2.0 to log(Sigma. pc(2)) greater than or similar to 0.0. Their distributions are highly non-uniform, showing groups that frequently have subgroups inside. The sizes of the stellar groups do not exhibit characteristic values, and range continuously from several parsecs to more than 100. pc; the cumulative size distribution can be well described by a single power law, with the power-law index indicating a projected fractal dimension D-2 = 1.6 +/- 0.3. We suggest that the phenomena revealed here support a scenario of hierarchical star formation. Comparisons with other star-forming regions and galaxies are also discussed.}, language = {en} } @article{WarrenEllisonBarkovetal.2017, author = {Warren, Donald C. and Ellison, Donald C. and Barkov, Maxim V. and Nagataki, Shigehiro}, title = {Nonlinear Particle Acceleration and Thermal Particles in GRB Afterglows}, series = {The astrophysical journal : an international review of spectroscopy and astronomical physics}, volume = {835}, journal = {The astrophysical journal : an international review of spectroscopy and astronomical physics}, number = {2}, publisher = {IOP Publ. Ltd.}, address = {Bristol}, issn = {0004-637X}, doi = {10.3847/1538-4357/aa56c3}, pages = {15}, year = {2017}, abstract = {The standard model for GRB afterglow emission treats the accelerated electron population as a simple power law, N(E) proportional to E-p for p greater than or similar to 2. However, in standard Fermi shock acceleration, a substantial fraction of the swept-up particles do not enter the acceleration process at all. Additionally, if acceleration is efficient, then the nonlinear back-reaction of accelerated particles on the shock structure modifies the shape of the nonthermal tail of the particle spectra. Both of these modifications to the standard synchrotron afterglow impact the luminosity, spectra, and temporal variation of the afterglow. To examine the effects of including thermal particles and nonlinear particle acceleration on afterglow emission, we follow a hydrodynamical model for an afterglow jet and simulate acceleration at numerous points during the evolution. When thermal particles are included, we find that the electron population is at no time well fitted by a single power law, though the highest-energy electrons are; if the acceleration is efficient, then the power-law region is even smaller. Our model predicts hard-soft-hard spectral evolution at X-ray energies, as well as an uncoupled X-ray and optical light curve. Additionally, we show that including emission from thermal particles has drastic effects (increases by factors of 100 and 30, respectively) on the observed flux at optical and GeV energies. This enhancement of GeV emission makes afterglow detections by future gamma-ray observatories, such as CTA, very likely.}, language = {en} } @article{LiuCherstvyMetzler2017, author = {Liu, Lin and Cherstvy, Andrey G. and Metzler, Ralf}, title = {Facilitated Diffusion of Transcription Factor Proteins with Anomalous Bulk Diffusion}, series = {The journal of physical chemistry : B, Condensed matter, materials, surfaces, interfaces \& biophysical chemistry}, volume = {121}, journal = {The journal of physical chemistry : B, Condensed matter, materials, surfaces, interfaces \& biophysical chemistry}, publisher = {American Chemical Society}, address = {Washington}, issn = {1520-6106}, doi = {10.1021/acs.jpcb.6b12413}, pages = {1284 -- 1289}, year = {2017}, abstract = {What are the physical laws of the diffusive search of proteins for their specific binding sites on DNA in the presence of the macromolecular crowding in cells? We performed extensive computer simulations to elucidate the protein target search on DNA. The novel feature is the viscoelastic non-Brownian protein bulk diffusion recently observed experimentally. We examine the influence of the protein-DNA binding affinity and the anomalous diffusion exponent on the target search time. In all cases an optimal search time is found. The relative contribution of intermittent three-dimensional bulk diffusion and one-dimensional sliding of proteins along the DNA is quantified. Our results are discussed in the light of recent single molecule tracking experiments, aiming at a better understanding of the influence of anomalous kinetics of proteins on the facilitated diffusion mechanism.}, language = {en} } @article{AlmeidaSanaTayloretal.2017, author = {Almeida, Leonardo A. and Sana, H. and Taylor, W. and Barb{\´a}, Rodolfo and Bonanos, Alceste Z. and Crowther, Paul and Damineli, Augusto and de Koter, A. and de Mink, Selma E. and Evans, C. J. and Gieles, Mark and Grin, Nathan J. and H{\´e}nault-Brunet, V. and Langer, Norbert and Lennon, D. and Lockwood, Sean and Ma{\´i}z Apell{\´a}niz, Jes{\´u}s and Moffat, A. F. J. and Neijssel, C. and Norman, C. and Ram{\´i}rez-Agudelo, O. H. and Richardson, N. D. and Schootemeijer, Abel and Shenar, Tomer and Soszyński, Igor and Tramper, Frank and Vink, J. S.}, title = {The tarantula massive binary monitoring}, series = {Astronomy and astrophysics : an international weekly journal}, volume = {598}, journal = {Astronomy and astrophysics : an international weekly journal}, publisher = {EDP Sciences}, address = {Les Ulis}, issn = {1432-0746}, doi = {10.1051/0004-6361/201629844}, pages = {36}, year = {2017}, abstract = {Context: Massive binaries play a crucial role in the Universe. Knowing the distributions of their orbital parameters is important for a wide range of topics from stellar feedback to binary evolution channels and from the distribution of supernova types to gravitational wave progenitors, yet no direct measurements exist outside the Milky Way. Aims: The Tarantula Massive Binary Monitoring project was designed to help fill this gap by obtaining multi-epoch radial velocity (RV) monitoring of 102 massive binaries in the 30 Doradus region. Methods: In this paper we analyze 32 FLAMES/GIRAFFE observations of 93 O- and 7 B-type binaries. We performed a Fourier analysis and obtained orbital solutions for 82 systems: 51 single-lined (SB1) and 31 double-lined (SB2) spectroscopic binaries. Results: Overall, the binary fraction and orbital properties across the 30 Doradus region are found to be similar to existing Galactic samples. This indicates that within these domains environmental effects are of second order in shaping the properties of massive binary systems. A small difference is found in the distribution of orbital periods, which is slightly flatter (in log space) in 30 Doradus than in the Galaxy, although this may be compatible within error estimates and differences in the fitting methodology. Also, orbital periods in 30 Doradus can be as short as 1.1 d, somewhat shorter than seen in Galactic samples. Equal mass binaries (q> 0.95) in 30 Doradus are all found outside NGC 2070, the central association that surrounds R136a, the very young and massive cluster at 30 Doradus's core. Most of the differences, albeit small, are compatible with expectations from binary evolution. One outstanding exception, however, is the fact that earlier spectral types (O2-O7) tend to have shorter orbital periods than later spectral types (O9.2-O9.7). Conclusions: Our results point to a relative universality of the incidence rate of massive binaries and their orbital properties in the metallicity range from solar (Z⊙) to about half solar. This provides the first direct constraints on massive binary properties in massive star-forming galaxies at the Universe's peak of star formation at redshifts z ~ 1 to 2 which are estimated to have Z ~ 0.5 Z⊙.}, language = {en} }