@article{TalukderSenChakrabortietal.2014, author = {Talukder, Srijeeta and Sen, Shrabani and Chakraborti, Prantik and Metzler, Ralf and Banik, Suman K. and Chaudhury, Pinaki}, title = {Breathing dynamics based parameter sensitivity analysis of hetero-polymeric DNA}, series = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, volume = {140}, 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 = {10.1063/1.4869112}, pages = {10}, year = {2014}, abstract = {We study the parameter sensitivity of hetero-polymeric DNA within the purview of DNA breathing dynamics. The degree of correlation between the mean bubble size and the model parameters is estimated for this purpose for three different DNA sequences. The analysis leads us to a better understanding of the sequence dependent nature of the breathing dynamics of hetero-polymeric DNA. Out of the 14 model parameters for DNA stability in the statistical Poland-Scheraga approach, the hydrogen bond interaction epsilon(hb)(AT) for an AT base pair and the ring factor. turn out to be the most sensitive parameters. In addition, the stacking interaction epsilon(st)(TA-TA) for an TA-TA nearest neighbor pair of base-pairs is found to be the most sensitive one among all stacking interactions. Moreover, we also establish that the nature of stacking interaction has a deciding effect on the DNA breathing dynamics, not the number of times a particular stacking interaction appears in a sequence. We show that the sensitivity analysis can be used as an effective measure to guide a stochastic optimization technique to find the kinetic rate constants related to the dynamics as opposed to the case where the rate constants are measured using the conventional unbiased way of optimization. (c) 2014 AIP Publishing LLC.}, language = {en} } @misc{TalukderSenChakrabortietal.2014, author = {Talukder, Srijeeta and Sen, Shrabani and Chakraborti, Prantik and Metzler, Ralf and Banik, Suman K. and Chaudhury, Pinaki}, title = {Breathing dynamics based parameter sensitivity analysis of hetero-polymeric DNA}, series = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, volume = {140}, journal = {The journal of chemical physics : bridges a gap between journals of physics and journals of chemistr}, number = {14}, publisher = {American Institute of Physics}, address = {Melville}, issn = {0021-9606}, doi = {10.1063/1.4871297}, pages = {1}, year = {2014}, abstract = {We study the parameter sensitivity of hetero-polymeric DNA within the purview of DNA breathing dynamics. The degree of correlation between the mean bubble size and the model parameters is estimated for this purpose for three different DNA sequences. The analysis leads us to a better understanding of the sequence dependent nature of the breathing dynamics of hetero-polymeric DNA. Out of the 14 model parameters for DNA stability in the statistical Poland-Scheraga approach, the hydrogen bond interaction epsilon(hb)(AT) for an AT base pair and the ring factor. turn out to be the most sensitive parameters. In addition, the stacking interaction epsilon(st)(TA-TA) for an TA-TA nearest neighbor pair of base-pairs is found to be the most sensitive one among all stacking interactions. Moreover, we also establish that the nature of stacking interaction has a deciding effect on the DNA breathing dynamics, not the number of times a particular stacking interaction appears in a sequence. We show that the sensitivity analysis can be used as an effective measure to guide a stochastic optimization technique to find the kinetic rate constants related to the dynamics as opposed to the case where the rate constants are measured using the conventional unbiased way of optimization.}, language = {en} } @article{ZinkNiebuhrJechowetal.2014, author = {Zink, Christof and Niebuhr, Mario and Jechow, Andreas and Heuer, Axel and Menzel, Ralf}, title = {Broad area diode laser with on-chip transverse Bragg grating stabilized in an off-axis external cavity}, series = {Optics express : the international electronic journal of optics}, volume = {22}, journal = {Optics express : the international electronic journal of optics}, number = {12}, publisher = {Optical Society of America}, address = {Washington}, issn = {1094-4087}, doi = {10.1364/OE.22.014108}, pages = {14108 -- 14113}, year = {2014}, abstract = {The emission characteristics of a novel, specially designed broad area diode laser (BAL) with on-chip transversal Bragg resonance (TBR) grating in lateral direction were investigated in an off-axis external cavity setup. The internal TBR grating defines a low loss transversal mode at a specific angle of incidence and a certain wavelength. By providing feedback at this specific angle with an external mirror, it is possible to select this low loss transverse mode and stabilize the BAL. Near diffraction limited emission with an almost single lobed far field pattern could be realized, in contrast to the double lobed far field pattern of similar setups using standard BALs or phase-locked diode laser arrays. Furthermore, we could achieve a narrow bandwidth emission with a simplified setup without external frequency selective elements. (C) 2014 Optical Society of America}, language = {en} } @article{KliemLinForbesetal.2014, author = {Kliem, Bernhard and Lin, J. and Forbes, T. G. and Priest, E. R. and Toeroek, T.}, title = {Catastrophe versus instability for the eruption of a toroadal solar magnetic flux}, series = {The astrophysical journal : an international review of spectroscopy and astronomical physics}, volume = {789}, journal = {The astrophysical journal : an international review of spectroscopy and astronomical physics}, number = {1}, publisher = {IOP Publ. Ltd.}, address = {Bristol}, issn = {0004-637X}, doi = {10.1088/0004-637X/789/1/46}, pages = {13}, year = {2014}, abstract = {The onset of a solar eruption is formulated here as either a magnetic catastrophe or as an instability. Both start with the same equation of force balance governing the underlying equilibria. Using a toroidal flux rope in an external bipolar or quadrupolar field as a model for the current-carrying flux, we demonstrate the occurrence of a fold catastrophe by loss of equilibrium for several representative evolutionary sequences in the stable domain of parameter space. We verify that this catastrophe and the torus instability occur at the same point; they are thus equivalent descriptions for the onset condition of solar eruptions.}, language = {en} } @misc{LiuTkachovKomberetal.2014, author = {Liu, W. and Tkachov, R. and Komber, H. and Senkovskyy, V. and Schubert, M. and Wei, Z. and Facchetti, A. and Neher, Dieter and Kiriy, A.}, title = {Chain-growth polycondensation of perylene diimide-based copolymers}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-98724}, pages = {8}, year = {2014}, abstract = {Herein, we report the chain-growth tin-free room temperature polymerization method to synthesize n-type perylene diimide-dithiophene-based conjugated polymers (PPDIT2s) suitable for solar cell and transistor applications. The palladium/electron-rich tri-tert-butylphosphine catalyst is effective to enable the chain-growth polymerization of anion-radical monomer Br-TPDIT-Br/Zn to PPDIT2 with a molecular weight up to Mw ≈ 50 kg mol-1 and moderate polydispersity. This is the second example of the polymerization of unusual anion-radical aromatic complexes formed in a reaction of active Zn and electron-deficient diimide-based aryl halides. As such, the discovered polymerization method is not a specific reactivity feature of the naphthalene-diimide derivatives but is rather a general polymerization tool. This is an important finding, given the significantly higher maximum external quantum efficiency that can be reached with PDI-based copolymers (32-45\%) in all-polymer solar cells compared to NDI-based materials (15-30\%). Our studies revealed that PPDIT2 synthesized by the new method and the previously published polymer prepared by step-growth Stille polycondensation show similar electron mobility and all-polymer solar cell performance. At the same time, the polymerization reported herein has several technological advantages as it proceeds relatively fast at room temperature and does not involve toxic tin-based compounds. Because several chain-growth polymerization reactions are well-suited for the preparation of well-defined multi-functional polymer architectures, the next target is to explore the utility of the discovered polymerization in the synthesis of end-functionalized polymers and block copolymers. Such materials would be helpful to improve the nanoscale morphology of polymer blends in all-polymer solar cells.}, language = {en} } @article{LiuTkachovKomberetal.2014, author = {Liu, W. and Tkachov, R. and Komber, H. and Senkovskyy, V. and Schubert, M. and Wei, Z. and Facchetti, A. and Neher, Dieter and Kiriy, A.}, title = {Chain-growth polycondensation of perylene diimide-based copolymers: a new route to regio-regular perylene diimide-based acceptors for all-polymer solar cells and n-type transistors}, series = {Polymer Chemistry}, volume = {5}, journal = {Polymer Chemistry}, number = {10}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1759-9954}, doi = {10.1039/c3py01707a}, pages = {3404 -- 3411}, year = {2014}, abstract = {Herein, we report the chain-growth tin-free room temperature polymerization method to synthesize n-type perylene diimide-dithiophene-based conjugated polymers (PPDIT2s) suitable for solar cell and transistor applications. The palladium/electron-rich tri-tert-butylphosphine catalyst is effective to enable the chain-growth polymerization of anion-radical monomer Br-TPDIT-Br/Zn to PPDIT2 with a molecular weight up to M-w approximate to 50 kg mol(-1) and moderate polydispersity. This is the second example of the polymerization of unusual anion-radical aromatic complexes formed in a reaction of active Zn and electron-deficient diimide-based aryl halides. As such, the discovered polymerization method is not a specific reactivity feature of the naphthalene-diimide derivatives but is rather a general polymerization tool. This is an important finding, given the significantly higher maximum external quantum efficiency that can be reached with PDI-based copolymers (32-45\%) in all-polymer solar cells compared to NDI-based materials (15-30\%). Our studies revealed that PPDIT2 synthesized by the new method and the previously published polymer prepared by step-growth Stille polycondensation show similar electron mobility and all-polymer solar cell performance. At the same time, the polymerization reported herein has several technological advantages as it proceeds relatively fast at room temperature and does not involve toxic tin-based compounds. Because several chain-growth polymerization reactions are well-suited for the preparation of well-defined multi-functional polymer architectures, the next target is to explore the utility of the discovered polymerization in the synthesis of end-functionalized polymers and block copolymers. Such materials would be helpful to improve the nanoscale morphology of polymer blends in all-polymer solar cells.}, language = {en} } @article{KraffertSteyrleuthnerAlbrechtetal.2014, author = {Kraffert, Felix and Steyrleuthner, Robert and Albrecht, Steve and Neher, Dieter and Scharber, Markus C. and Bittl, Robert and Behrends, Jan}, title = {Charge Separation in PCPDTBT : PCBM Blends from an EPR Perspective}, series = {The journal of physical chemistry}, volume = {118}, journal = {The journal of physical chemistry}, number = {49}, publisher = {American Chemical Society}, address = {Washington}, issn = {1932-7447}, doi = {10.1021/jp509650v}, pages = {28482 -- 28493}, year = {2014}, language = {en} } @article{TremelFischerKayunkidetal.2014, author = {Tremel, Kim and Fischer, Florian S. U. and Kayunkid, Navaphun and Di Pietro, Riccardo and Tkachov, Roman and Kiriy, Anton and Neher, Dieter and Ludwigs, Sabine and Brinkmann, Martin}, title = {Charge transport anisotropy in highly oriented thin films of the acceptor polymer P(NDI2OD-T2)}, series = {dvanced energy materials}, volume = {4}, journal = {dvanced energy materials}, number = {10}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {1614-6832}, doi = {10.1002/aenm.201301659}, pages = {13}, year = {2014}, abstract = {The nanomorphology of the high mobility polymer poly{[N,N'-bis(2-octyldodecyl)-1,4,5,8-naphthalenedicarboximide-2,6-diyl]-alt-5,5'-(2,2'-bithiophene)} P(NDI2OD-T2) in thin films is explored as a function of different annealing conditions and correlated to optical and electrical properties. While nanofibrils with face-on orientation in form I are obtained directly after spin-coating and annealing below the melt transition temperature, clear evidence of lamellar structures is found after melt-annealing followed by slow cooling to room temperature. Interestingly these structural changes are accompanied by distinct changes in the absorption patterns. Electron diffraction measurements further show clear transitions towards predominant edge-on oriented chains in form II upon melt-annealing. Large-scale alignment with dichroic ratios up to 10 and improved order is achieved by high temperature rubbing and subsequent post-rubbing annealing. These highly oriented morphologies allow anisotropic in-plane charge transport to be probed with top-gate transistors parallel and perpendicular to the polymer chain direction. Mobilities up to 0.1 cm(2) V-1 s(-1) are observed parallel to the polymer chain, which is up to 10 times higher than those perpendicular to the polymer chain.}, language = {en} } @article{YeldesbayPikovskijRosenblum2014, author = {Yeldesbay, Azamat and Pikovskij, Arkadij and Rosenblum, Michael}, title = {Chimeralike states in an ensemble of globally coupled oscillators}, series = {Physical review letters}, volume = {112}, journal = {Physical review letters}, number = {14}, publisher = {American Physical Society}, address = {College Park}, issn = {0031-9007}, doi = {10.1103/PhysRevLett.112.144103}, pages = {5}, year = {2014}, abstract = {We demonstrate the emergence of a complex state in a homogeneous ensemble of globally coupled identical oscillators, reminiscent of chimera states in nonlocally coupled oscillator lattices. In this regime some part of the ensemble forms a regularly evolving cluster, while all other units irregularly oscillate and remain asynchronous. We argue that the chimera emerges because of effective bistability, which dynamically appears in the originally monostable system due to internal delayed feedback in individual units. Additionally, we present two examples of chimeras in bistable systems with frequency-dependent phase shift in the global coupling.}, language = {en} } @article{MassaOskinovaFullertonetal.2014, author = {Massa, D. and Oskinova, Lida and Fullerton, A. W. and Prinja, R. K. and Bohlender, D. A. and Morrison, N. D. and Blake, M. and Pych, W.}, title = {CIR modulation of the X-ray flux from the O7.5 III(n)((f)) star xi Persei(a similar to...)?}, series = {Monthly notices of the Royal Astronomical Society}, volume = {441}, journal = {Monthly notices of the Royal Astronomical Society}, number = {3}, publisher = {Oxford Univ. Press}, address = {Oxford}, issn = {0035-8711}, doi = {10.1093/mnras/stu565}, pages = {2173 -- 2180}, year = {2014}, abstract = {We analyse a 162 ks high energy transmission grating Chandra observation of the O7.5 III(n)((f)) star xi Per, together with contemporaneous H alpha observations. The X-ray spectrum of this star is similar to other single O stars, and not pathological in any way. Its UV wind lines are known to display cyclical time variability, with a period of 2.086 d, which is thought to be associated with corotating interaction regions (CIRs). We examine the Chandra and H alpha data for variability on this time-scale. We find that the X-rays vary by similar to 15 per cent over the course of the observations and that this variability is out of phase with variable absorption on the blue wing of the H alpha profiles (assumed to be a surrogate for the UV absorption associated with CIRs). While not conclusive, both sets of data are consistent with models where the CIRs are either a source of X-rays or modulate them.}, language = {en} } @article{KaiserNoackCordieretal.2014, author = {Kaiser, Eurika and Noack, Bernd R. and Cordier, Laurent and Spohn, Andreas and Segond, Marc and Abel, Markus and Daviller, Guillaume and Osth, Jan and Krajnovic, Sinisa and Niven, Robert K.}, title = {Cluster-based reduced-order modelling of a mixing layer}, series = {Journal of fluid mechanics}, volume = {754}, journal = {Journal of fluid mechanics}, publisher = {Cambridge Univ. Press}, address = {New York}, issn = {0022-1120}, doi = {10.1017/jfm.2014.355}, pages = {365 -- 414}, year = {2014}, language = {en} } @article{LevanovaOsipovPikovskij2014, author = {Levanova, T. A. and Osipov, Grigory V. and Pikovskij, Arkadij}, title = {Coherence properties of cycling chaos}, series = {Communications in nonlinear science \& numerical simulation}, volume = {19}, journal = {Communications in nonlinear science \& numerical simulation}, number = {8}, publisher = {Elsevier}, address = {Amsterdam}, issn = {1007-5704}, doi = {10.1016/j.cnsns.2014.01.011}, pages = {2734 -- 2739}, year = {2014}, abstract = {Cycling chaos is a heteroclinic connection between several chaotic attractors, at which switchings between the chaotic sets occur at growing time intervals. Here we characterize the coherence properties of these switchings, considering nearly periodic regimes that appear close to the cycling chaos due to imperfections or to instability. Using numerical simulations of coupled Lorenz, Roessler, and logistic map models, we show that the coherence is high in the case of imperfection (so that asymptotically the cycling chaos is very regular), while it is low close to instability of the cycling chaos. (C) 2014 Elsevier B. V. All rights reserved.}, language = {en} } @article{GodecBauerMetzler2014, author = {Godec, Aljaz and Bauer, Maximilian and Metzler, Ralf}, title = {Collective dynamics effect transient subdiffusion of inert tracers in flexible gel networks}, series = {New journal of physics : the open-access journal for physics}, volume = {16}, journal = {New journal of physics : the open-access journal for physics}, publisher = {IOP Publ. Ltd.}, address = {Bristol}, issn = {1367-2630}, doi = {10.1088/1367-2630/16/9/092002}, pages = {13}, year = {2014}, abstract = {Based on extensive Brownian dynamics simulations we study the thermal motion of a tracer bead in a cross-linked, flexible gel in the limit when the tracer particle size is comparable to or even larger than the equilibrium mesh size of the gel. The analysis of long individual trajectories of the tracer demonstrates the existence of pronounced transient anomalous diffusion. From the time averaged mean squared displacement and the time averaged van Hove correlation functions we elucidate the many-body origin of the non-Brownian tracer bead dynamics. Our results shed new light onto the ongoing debate over the physical origin of steric tracer interactions with structured environments.}, language = {en} } @unpublished{Buerger2014, author = {B{\"u}rger, Gerd}, title = {Comment on "Bias correction, quantile mapping, and downscaling: revisiting the inflation issue"}, series = {Journal of climate}, volume = {27}, journal = {Journal of climate}, number = {4}, publisher = {American Meteorological Soc.}, address = {Boston}, issn = {0894-8755}, doi = {10.1175/JCLI-D-13-00184.1}, pages = {1819 -- 1820}, year = {2014}, abstract = {In a recent paper, Maraun describes the adverse effects of quantile mapping on downscaling. He argues that when large-scale GCM variables are rescaled directly to small-scale fields or even station data, genuine small-scale covariability is lost and replaced by uniform variability inherited from the larger scales. This leads to a misrepresentation mainly of areal means and long-term trends. This comment acknowledges the former point, although the argument is relatively old, but disagrees with the latter, showing that grid-size long-term trends can be different from local trends. Finally, because it is partly incorrectly addressed, some clarification is added regarding the inflation issue, stressing that neither randomization nor inflation is free of unverified assumptions.}, language = {en} } @unpublished{FoehlischdeGrootOdeliusetal.2014, author = {F{\"o}hlisch, Alexander and de Groot, F. M. F. and Odelius, Michael and Techert, Simone and Wernet, P.}, title = {Comment on "state-dependent electron delocalization dynamics at the solute-solvent interface: soft-x-ray absorption spectroscopy and lambda b initio calculations"}, series = {Physical review letters}, volume = {112}, journal = {Physical review letters}, number = {12}, publisher = {American Physical Society}, address = {College Park}, issn = {0031-9007}, doi = {10.1103/PhysRevLett.112.129302}, pages = {2}, year = {2014}, language = {en} } @phdthesis{Brem2014, author = {Brem, Patrick}, title = {Compact objects in dense astrophysical environments}, school = {Universit{\"a}t Potsdam}, pages = {173}, year = {2014}, language = {en} } @phdthesis{Yeldesbay2014, author = {Yeldesbay, Azamat}, title = {Complex regimes of synchronization}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-73348}, school = {Universit{\"a}t Potsdam}, pages = {ii, 60}, year = {2014}, abstract = {Synchronization is a fundamental phenomenon in nature. It can be considered as a general property of self-sustained oscillators to adjust their rhythm in the presence of an interaction. In this work we investigate complex regimes of synchronization phenomena by means of theoretical analysis, numerical modeling, as well as practical analysis of experimental data. As a subject of our investigation we consider chimera state, where due to spontaneous symmetry-breaking of an initially homogeneous oscillators lattice split the system into two parts with different dynamics. Chimera state as a new synchronization phenomenon was first found in non-locally coupled oscillators system, and has attracted a lot of attention in the last decade. However, the recent studies indicate that this state is also possible in globally coupled systems. In the first part of this work, we show under which conditions the chimera-like state appears in a system of globally coupled identical oscillators with intrinsic delayed feedback. The results of the research explain how initially monostable oscillators became effectivly bistable in the presence of the coupling and create a mean field that sustain the coexistence of synchronized and desynchronized states. Also we discuss other examples, where chimera-like state appears due to frequency dependence of the phase shift in the bistable system. In the second part, we make further investigation of this topic by modeling influence of an external periodic force to an oscillator with intrinsic delayed feedback. We made stability analysis of the synchronized state and constructed Arnold tongues. The results explain formation of the chimera-like state and hysteric behavior of the synchronization area. Also, we consider two sets of parameters of the oscillator with symmetric and asymmetric Arnold tongues, that correspond to mono- and bi-stable regimes of the oscillator. In the third part, we demonstrate the results of the work, which was done in collaboration with our colleagues from Psychology Department of University of Potsdam. The project aimed to study the effect of the cardiac rhythm on human perception of time using synchronization analysis. From our part, we made a statistical analysis of the data obtained from the conducted experiment on free time interval reproduction task. We examined how ones heartbeat influences the time perception and searched for possible phase synchronization between heartbeat cycles and time reproduction responses. The findings support the prediction that cardiac cycles can serve as input signals, and is used for reproduction of time intervals in the range of several seconds.}, language = {en} } @article{DiFlorioBruendermannYadavallietal.2014, author = {Di Florio, G. and Bruendermann, E. and Yadavalli, Nataraja Sekhar and Santer, Svetlana and Havenith, Martina}, title = {Confocal raman microscopy and AFM study of the interface between the photosensitive polymer layer and multilayer graphene}, series = {Soft materials}, volume = {12}, journal = {Soft materials}, publisher = {Taylor \& Francis Group}, address = {Philadelphia}, issn = {1539-445X}, doi = {10.1080/1539445X.2014.945040}, pages = {S98 -- S105}, year = {2014}, abstract = {In this paper we report on the interaction between photosensitive azobenzene-containing polymer films and on top adsorbed graphene multilayers. The photosensitive polymer film changes its topography under irradiation with light interference patterns according to their polarization distribution. The multilayer graphene follows the deformation of the polymer film and stretches accordingly. Using confocal Raman microspectroscopy we can detect the appearance of additional peaks in the Raman spectrum of the photosensitive polymer film upon irradiation indicating a molecular interaction at the interface between the graphene multilayer and the polymer matrix. Multi-component analysis of the specific Raman bands shows that the interaction involves the graphene rings and the aromatic rings of the azobenzenes causing the strong adhesion between the two materials.}, language = {en} } @article{KangBarbirzLipowskyetal.2014, author = {Kang, Yu and Barbirz, Stefanie and Lipowsky, Reinhard and Santer, Mark}, title = {Conformational Diversity of O-Antigen Polysaccharides of the Gram-Negative Bacterium Shigella flexneri Serotype Y}, series = {The journal of physical chemistry : B, Condensed matter, materials, surfaces, interfaces \& biophysical chemistry}, volume = {118}, journal = {The journal of physical chemistry : B, Condensed matter, materials, surfaces, interfaces \& biophysical chemistry}, number = {9}, publisher = {American Chemical Society}, address = {Washington}, issn = {1520-6106}, doi = {10.1021/jp4111713}, pages = {2523 -- 2534}, year = {2014}, language = {en} } @article{Wendt2014, author = {Wendt, Martin}, title = {Constraints on variations of m(p)/m(e) based on UVES observations of H-2}, series = {Astronomische Nachrichten = Astronomical notes}, volume = {335}, journal = {Astronomische Nachrichten = Astronomical notes}, number = {1}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {0004-6337}, doi = {10.1002/asna.201312008}, pages = {106 -- 112}, year = {2014}, abstract = {This article summarizes the latest results on the proton-to-electron mass ratio derived from H-2 observations at high redshift in the light of possible variations of fundamental physical constants. The focus lies on UVES observations of the past years as enormous progress was achieved since the first positive results on / were published. With the better understanding of systematics, dedicated observation runs, and numerous approaches to improve wavelength calibration accuracy, all current findings are in reasonable good agreement with no variation and provide an upper limit of / < 1 x 10(-5) for the redshift range of 2 < z < 3. ((}, language = {en} }