@phdthesis{Reppert2021,
  author    = {Reppert, Alexander von},
  title     = {Magnetic strain contributions in laser-excited metals studied by time-resolved X-ray diffraction},
  doi       = {10.25932/publishup-53558},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-535582},
  school      = {Universit{\"a}t Potsdam},
  pages     = {XV, 311},
  year      = {2021},
  abstract  = {In this work I explore the impact of magnetic order on the laser-induced ultrafast strain response of metals. Few experiments with femto- or picosecond time-resolution have so far investigated magnetic stresses. This is contrasted by the industrial usage of magnetic invar materials or magnetostrictive transducers for ultrasound generation, which already utilize magnetostrictive stresses in the low frequency regime. In the reported experiments I investigate how the energy deposition by the absorption of femtosecond laser pulses in thin metal films leads to an ultrafast stress generation. I utilize that this stress drives an expansion that emits nanoscopic strain pulses, so called hypersound, into adjacent layers. Both the expansion and the strain pulses change the average inter-atomic distance in the sample, which can be tracked with sub-picosecond time resolution using an X-ray diffraction setup at a laser-driven Plasma X-ray source. Ultrafast X-ray diffraction can also be applied to buried layers within heterostructures that cannot be accessed by optical methods, which exhibit a limited penetration into metals. The reconstruction of the initial energy transfer processes from the shape of the strain pulse in buried detection layers represents a contribution of this work to the field of picosecond ultrasonics. A central point for the analysis of the experiments is the direct link between the deposited energy density in the nano-structures and the resulting stress on the crystal lattice. The underlying thermodynamical concept of a Gr{\"u}neisen parameter provides the theoretical framework for my work. I demonstrate how the Gr{\"u}neisen principle can be used for the interpretation of the strain response on ultrafast timescales in various materials and that it can be extended to describe magnetic stresses. The class of heavy rare-earth elements exhibits especially large magnetostriction effects, which can even lead to an unconventional contraction of the laser-excited transducer material. Such a dominant contribution of the magnetic stress to the motion of atoms has not been demonstrated previously. The observed rise time of the magnetic stress contribution in Dysprosium is identical to the decrease in the helical spin-order, that has been found previously using time-resolved resonant X-ray diffraction. This indicates that the strength of the magnetic stress can be used as a proxy of the underlying magnetic order. Such magnetostriction measurements are applicable even in case of antiparallel or non-collinear alignment of the magnetic moments and a vanishing magnetization. The strain response of metal films is usually determined by the pressure of electrons and lattice vibrations. I have developed a versatile two-pulse excitation routine that can be used to extract the magnetic contribution to the strain response even if systematic measurements above and below the magnetic ordering temperature are not feasible. A first laser pulse leads to a partial ultrafast demagnetization so that the amplitude and shape of the strain response triggered by the second pulse depends on the remaining magnetic order. With this method I could identify a strongly anisotropic magnetic stress contribution in the magnetic data storage material iron-platinum and identify the recovery of the magnetic order by the variation of the pulse-to-pulse delay. The stark contrast of the expansion of iron-platinum nanograins and thin films shows that the different constraints for the in-plane expansion have a strong influence on the out-of-plane expansion, due to the Poisson effect. I show how such transverse strain contributions need to be accounted for when interpreting the ultrafast out-of-plane strain response using thermal expansion coefficients obtained in near equilibrium conditions. This work contributes an investigation of magnetostriction on ultrafast timescales to the literature of magnetic effects in materials. It develops a method to extract spatial and temporal varying stress contributions based on a model for the amplitude and shape of the emitted strain pulses. Energy transfer processes result in a change of the stress profile with respect to the initial absorption of the laser pulses. One interesting example occurs in nanoscopic gold-nickel heterostructures, where excited electrons rapidly transport energy into a distant nickel layer, that takes up much more energy and expands faster and stronger than the laser-excited gold capping layer. Magnetic excitations in rare earth materials represent a large energy reservoir that delays the energy transfer into adjacent layers. Such magneto-caloric effects are known in thermodynamics but not extensively covered on ultrafast timescales. The combination of ultrafast X-ray diffraction and time-resolved techniques with direct access to the magnetization has a large potential to uncover and quantify such energy transfer processes.},
  language  = {en}
}
@phdthesis{Zeuschner2022,
  author    = {Zeuschner, Steffen Peer},
  title     = {Magnetoacoustics observed with ultrafast x-ray diffraction},
  doi       = {10.25932/publishup-56109},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-561098},
  school      = {Universit{\"a}t Potsdam},
  pages     = {V, 128, IX},
  year      = {2022},
  abstract  = {In the present thesis I investigate the lattice dynamics of thin film hetero structures of magnetically ordered materials upon femtosecond laser excitation as a probing and manipulation scheme for the spin system. The quantitative assessment of laser induced thermal dynamics as well as generated picosecond acoustic pulses and their respective impact on the magnetization dynamics of thin films is a challenging endeavor. All the more, the development and implementation of effective experimental tools and comprehensive models are paramount to propel future academic and technological progress. In all experiments in the scope of this cumulative dissertation, I examine the crystal lattice of nanoscale thin films upon the excitation with femtosecond laser pulses. The relative change of the lattice constant due to thermal expansion or picosecond strain pulses is directly monitored by an ultrafast X-ray diffraction (UXRD) setup with a femtosecond laser-driven plasma X-ray source (PXS). Phonons and spins alike exert stress on the lattice, which responds according to the elastic properties of the material, rendering the lattice a versatile sensor for all sorts of ultrafast interactions. On the one hand, I investigate materials with strong magneto-elastic properties; The highly magnetostrictive rare-earth compound TbFe2, elemental Dysprosium or the technological relevant Invar material FePt. On the other hand I conduct a comprehensive study on the lattice dynamics of Bi1Y2Fe5O12 (Bi:YIG), which exhibits high-frequency coherent spin dynamics upon femtosecond laser excitation according to the literature. Higher order standing spinwaves (SSWs) are triggered by coherent and incoherent motion of atoms, in other words phonons, which I quantified with UXRD. We are able to unite the experimental observations of the lattice and magnetization dynamics qualitatively and quantitatively. This is done with a combination of multi-temperature, elastic, magneto-elastic, anisotropy and micro-magnetic modeling. The collective data from UXRD, to probe the lattice, and time-resolved magneto-optical Kerr effect (tr-MOKE) measurements, to monitor the magnetization, were previously collected at different experimental setups. To improve the precision of the quantitative assessment of lattice and magnetization dynamics alike, our group implemented a combination of UXRD and tr-MOKE in a singular experimental setup, which is to my knowledge, the first of its kind. I helped with the conception and commissioning of this novel experimental station, which allows the simultaneous observation of lattice and magnetization dynamics on an ultrafast timescale under identical excitation conditions. Furthermore, I developed a new X-ray diffraction measurement routine which significantly reduces the measurement time of UXRD experiments by up to an order of magnitude. It is called reciprocal space slicing (RSS) and utilizes an area detector to monitor the angular motion of X-ray diffraction peaks, which is associated with lattice constant changes, without a time-consuming scan of the diffraction angles with the goniometer. RSS is particularly useful for ultrafast diffraction experiments, since measurement time at large scale facilities like synchrotrons and free electron lasers is a scarce and expensive resource. However, RSS is not limited to ultrafast experiments and can even be extended to other diffraction techniques with neutrons or electrons.},
  language  = {en}
}
@phdthesis{Maiti2023,
  author    = {Maiti, Snehanshu},
  title     = {Magnetohydrodynamic turbulence and cosmic ray transport},
  doi       = {10.25932/publishup-58903},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-589030},
  school      = {Universit{\"a}t Potsdam},
  pages     = {vii, 81},
  year      = {2023},
  abstract  = {The first part of the thesis studies the properties of fast mode in magneto hydro-dynamic (MHD) turbulence. 1D and 3D numerical simulations are carried out to generate decaying fast mode MHD turbulence. The injection of waves are carried out in a collinear and isotropic fashion to generate fast mode turbulence. The properties of fast mode turbulence are analyzed by studying their energy spectral density, 2D structure functions and energy decay/cascade time. The injection wave vector is varied to study the dependence of the above properties on the injection wave vectors. The 1D energy spectrum obtained for the velocity and magnetic fields has 𝐸 (𝑘) ∝ 𝑘-2. The 2D energy spectrum and 2D structure functions in parallel and perpendicular directions shows that fast mode turbulence generated is isotropic in nature. The cascade/decay rate of fast mode MHD turbulence is proportional to 𝑘-0.5 for different kinds of wave vector injection. Simulations are also carried out in 1D and 3D to compare balanced and imbalanced turbulence. The results obtained shows that while 1D imbalanced turbulence decays faster than 1D balanced turbulence, there is no difference in the decay of 3D balanced and imbalanced turbulence for the current resolution of 512 grid points. "The second part of the thesis studies cosmic ray (CR) transport in driven MHD turbulence and is strongly dependent on it's properties. Test particle simulations are carried out to study CR interaction with both total MHD turbulence and decomposed MHD modes. The spatial diffusion coefficients and the pitch angle scattering diffusion coefficients are calculated from the test particle trajectories in turbulence. The results confirms that the fast modes dominate the CR propagation, whereas Alfv{\´e}n, slow modes are much less efficient with similar pitch angle scattering rates. The cross field transport on large and small scales are investigated next. On large/global scales, normal diffusion is observed and the diffusion coefficient is suppressed by 𝑀𝜁𝐴 compared to the parallel diffusion coefficients, with 𝜁 closer to 4 in Alfv{\´e}n modes than that in total turbulence as theoretically expected. For the CR transport on scales smaller than the turbulence injection scale 𝐿, both the local and global magnetic reference frames are adopted. Super diffusion is observed on such small scales in all the cases. Particularly, CR transport in Alfv{\´e}n modes show clear Richardson diffusion in the local reference frame. The diffusion transition smoothly from the Richardson's one with index 1.5 to normal diffusion as particle's mean free path decreases from 𝜆∥ ≫ 𝐿 to 𝜆∥ ≪ 𝐿. These results have broad applications to CRs in various astrophysical environments".},
  language  = {en}
}
@phdthesis{Pazienti2007,
  author    = {Pazienti, Antonio},
  title     = {Manipulations of spike trains and their impact on synchrony analysis},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-17447},
  school      = {Universit{\"a}t Potsdam},
  year      = {2007},
  abstract  = {The interaction between neuronal cells can be identified as the computing mechanism of the brain. Neurons are complex cells that do not operate in isolation, but they are organized in a highly connected network structure. There is experimental evidence that groups of neurons dynamically synchronize their activity and process brain functions at all levels of complexity. A fundamental step to prove this hypothesis is to analyze large sets of single neurons recorded in parallel. Techniques to obtain these data are meanwhile available, but advancements are needed in the pre-processing of the large volumes of acquired data and in data analysis techniques. Major issues include extracting the signal of single neurons from the noisy recordings (referred to as spike sorting) and assessing the significance of the synchrony. This dissertation addresses these issues with two complementary strategies, both founded on the manipulation of point processes under rigorous analytical control. On the one hand I modeled the effect of spike sorting errors on correlated spike trains by corrupting them with realistic failures, and studied the corresponding impact on correlation analysis. The results show that correlations between multiple parallel spike trains are severely affected by spike sorting, especially by erroneously missing spikes. When this happens sorting strategies characterized by classifying only good'' spikes (conservative strategies) lead to less accurate results than tolerant'' strategies. On the other hand, I investigated the effectiveness of methods for assessing significance that create surrogate data by displacing spikes around their original position (referred to as dithering). I provide analytical expressions of the probability of coincidence detection after dithering. The effectiveness of spike dithering in creating surrogate data strongly depends on the dithering method and on the method of counting coincidences. Closed-form expressions and bounds are derived for the case where the dither equals the allowed coincidence interval. This work provides new insights into the methodologies of identifying synchrony in large-scale neuronal recordings, and of assessing its significance.},
  language  = {en}
}
@phdthesis{Paul2017,
  author    = {Paul, Fabian},
  title     = {Markov state modeling of binding and conformational changes of proteins},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-404273},
  school      = {Universit{\"a}t Potsdam},
  pages     = {X, 112},
  year      = {2017},
  abstract  = {Proteins are molecules that are essential for life and carry out an enormous number of functions in organisms. To this end, they change their conformation and bind to other molecules. However, the interplay between conformational change and binding is not fully understood. In this work, this interplay is investigated with molecular dynamics (MD) simulations of the protein-peptide system Mdm2-PMI and by analysis of data from relaxation experiments. The central task it to uncover the binding mechanism, which is described by the sequence of (partial) binding events and conformational change events including their probabilities. In the simplest case, the binding mechanism is described by a two-step model: binding followed by conformational change or conformational change followed by binding. In the general case, longer sequences with multiple conformational changes and partial binding events are possible as well as parallel pathways that differ in their sequences of events. The theory of Markov state models (MSMs) provides the theoretical framework in which all these cases can be modeled. For this purpose, MSMs are estimated in this work from MD data, and rate equation models, which are related to MSMs, are inferred from experimental relaxation data. The MD simulation and Markov modeling of the PMI-Mdm2 system shows that PMI and Mdm2 can bind via multiple pathways. A main result of this work is a dissociation rate on the order of one event per second, which was calculated using Markov modeling and is in agreement with experiment. So far, dissociation rates and transition rates of this magnitude have only been calculated with methods that speed up transitions by acting with time-dependent, external forces on the binding partners. The simulation technique developed in this work, in contrast, allows the estimation of dissociation rates from the combination of free energy calculation and direct MD simulation of the fast binding process. Two new statistical estimators TRAM and TRAMMBAR are developed to estimate a MSM from the joint data of both simulation types. In addition, a new analysis technique for time-series data from chemical relaxation experiments is developed in this work. It allows to identify one of the above-mentioned two-step mechanisms as the mechanism that underlays the data. The new method is valid for a broader range of concentrations than previous methods and therefore allows to choose the concentrations such that the mechanism can be uniquely identified. It is successfully tested with data for the binding of recoverin to a rhodopsin kinase peptide.},
  language  = {en}
}
@phdthesis{Yin2010,
  author    = {Yin, Fan},
  title     = {Mathematic approaches for the calibration of the CHAMP satellite magnetic field measurements},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-41201},
  school      = {Universit{\"a}t Potsdam},
  year      = {2010},
  abstract  = {CHAMP (CHAllenging Minisatellite Payload) is a German small satellite mission to study the earth's gravity field, magnetic field and upper atmosphere. Thanks to the good condition of the satellite so far, the planned 5 years mission is extended to year 2009. The satellite provides continuously a large quantity of measurement data for the purpose of Earth study. The measurements of the magnetic field are undertaken by two Fluxgate Magnetometers (vector magnetometer) and one Overhauser Magnetometer (scalar magnetometer) flown on CHAMP. In order to ensure the quality of the data during the whole mission, the calibration of the magnetometers has to be performed routinely in orbit. The scalar magnetometer serves as the magnetic reference and its readings are compared with the readings of the vector magnetometer. The readings of the vector magnetometer are corrected by the parameters that are derived from this comparison, which is called the scalar calibration. In the routine processing, these calibration parameters are updated every 15 days by means of scalar calibration. There are also magnetic effects coming from the satellite which disturb the measurements. Most of them have been characterized during tests before launch. Among them are the remanent magnetization of the spacecraft and fields generated by currents. They are all considered to be constant over the mission life. The 8 years of operation experience allow us to investigate the long-term behaviors of the magnetometers and the satellite systems. According to the investigation, it was found that for example the scale factors of the FGM show obvious long-term changes which can be described by logarithmic functions. The other parameters (offsets and angles between the three components) can be considered constant. If these continuous parameters are applied for the FGM data processing, the disagreement between the OVM and the FGM readings is limited to \pm1nT over the whole mission. This demonstrates, the magnetometers on CHAMP exhibit a very good stability. However, the daily correction of the parameter Z component offset of the FGM improves the agreement between the magnetometers markedly. The Z component offset plays a very important role for the data quality. It exhibits a linear relationship with the standard deviation of the disagreement between the OVM and the FGM readings. After Z offset correction, the errors are limited to \pm0.5nT (equivalent to a standard deviation of 0.2nT). We improved the corrections of the spacecraft field which are not taken into account in the routine processing. Such disturbance field, e.g. from the power supply system of the satellite, show some systematic errors in the FGM data and are misinterpreted in 9-parameter calibration, which brings false local time related variation of the calibration parameters. These corrections are made by applying a mathematical model to the measured currents. This non-linear model is derived from an inversion technique. If the disturbance field of the satellite body are fully corrected, the standard deviation of scalar error \triangle B remains about 0.1nT. Additionally, in order to keep the OVM readings a reliable standard, the imperfect coefficients of the torquer current correction for the OVM are redetermined by solving a minimization problem. The temporal variation of the spacecraft remanent field is investigated. It was found that the average magnetic moment of the magneto-torquers reflects well the moment of the satellite. This allows for a continuous correction of the spacecraft field. The reasons for the possible unknown systemic error are discussed in this thesis. Particularly, both temperature uncertainties and time errors have influence on the FGM data. Based on the results of this thesis the data processing of future magnetic missions can be designed in an improved way. In particular, the upcoming ESA mission Swarm can take advantage of our findings and provide all the auxiliary measurements needed for a proper recovery of the ambient magnetic field.},
  language  = {en}
}
@phdthesis{Landau2020,
  author    = {Landau, Livnat},
  title     = {Mechanical stimulation of in-vitro tissue growth using magnetic beads},
  pages     = {112},
  year      = {2020},
  abstract  = {Cells and tissues are sensitive to mechanical forces applied to them. In particular, bone forming cells and connective tissues, composed of cells embedded in fibrous extracellular matrix (ECM), are continuously remodeled in response to the loads they bear. The mechanoresponses of cells embedded in tissue include proliferation, differentiation, apoptosis, internal signaling between cells, and formation and resorption of tissue. Experimental in-vitro systems of various designs have demonstrated that forces affect tissue growth, maturation and mineralization. However, the results depended on different parameters such as the type and magnitude of the force applied in each study. Some experiments demonstrated that applied forces increase cell proliferation and inhibit cell maturation rate, while other studies found the opposite effect. When the effect of different magnitudes of forces was compared, some studies showed that higher forces resulted in a cell proliferation increase or differentiation decrease, while other studies observed the opposite trend or no trend at all. In this study, MC3T3-E1 cells, a cell line of pre-osteoblasts (bone forming cells), was used. In this cell line, cell differentiation is known to accelerate after cells stop proliferating, typically at confluency. This makes this cell line an interesting subject for studying the influence of forces on the switch between the proliferation stage of the precursor cell and the differentiation to the mature osteoblasts. A new experimental system was designed to perform systematic investigations of the influence of the type and magnitude of forces on tissue growth. A single well plate contained an array of 80 rectangular pores. Each pore was seeded with MC3T3-E1 cells. The culture medium contained magnetic beads (MBs) of 4.5 μm in diameter that were incorporated into the pre-osteoblast cells. Using an N52 neodymium magnet, forces ranging over three orders of magnitude were applied to MBs incorporated in cells at 10 different distances from the magnet. The amount of formed tissue was assessed after 24 days of culture. The experimental design allowed to obtain data concerning (i) the influence of the type of the force (static, oscillating, no force) on tissue growth; (ii) the influence of the magnitude of force (pN-nN range); (iii) the effect of functionalizing the magnetic beads with the tripeptide Arg-Gly-Asp (RGD). To learn about cell differentiation state, in the final state of the tissue growth experiments, an analysis for the expression of alkaline phosphatase (ALP), a well - known marker of osteoblast differentiation, was performed. The experiments showed that the application of static magnetic forces increased tissue growth compared to control, while oscillating forces resulted in tissue growth reduction. A statistically significant positive correlation was found between the amount of tissue grown and the magnitude of the oscillating magnetic force. A positive but non-significant correlation of the amount of tissue with the magnitude of forces was obtained when static forces were applied. Functionalizing the MBs with RGD peptides and applying oscillating forces resulted in an increase of tissue growth relative to tissues incubated with "plain" epoxy MBs. ALP expression decreased as a function of the magnitude of force both when static and oscillating forces were applied. ALP stain intensity was reduced relative to control when oscillating forces were applied and was not significantly different than control for static forces. The suggested interpretation of the experimental findings is that larger mechanical forces delay cell maturation and keep the pre-osteoblasts in a more proliferative stage characterized by more tissue formed and lower expression of ALP. While the influence of the force magnitude can be well explained by an effect of the force on the switch between proliferation and differentiation, the influence of force type (static or oscillating) is less clear. In particular, it is challenging to reconcile the reduction of tissue formed under oscillating forces as compared to controls with the simultaneous reduction of ALP expression. To better understand this, it may be necessary to refine the staining protocol of the scaffolds and to include the amount and structure of ECM as well as other factors that were not monitored in the experiment and which may influence tissue growth and maturation. The developed experimental system proved well suited for a systematic and efficient study of the mechanoresponsiveness of tissue growth, it allowed a study of the dependence of tissue growth on force magnitude ranging over three orders of magnitude, and a comparison between the effect of static and oscillating forces. Future experiments can explore the multiple parameters that affect tissue growth as a function of the magnitude of the force: by applying different time-dependent forces; by extending the force range studied; or by using different cell lines and manipulating the mechanotransduction in the cells biochemically.},
  language  = {en}
}
@phdthesis{Gomez2016,
  author    = {Gomez, David},
  title     = {Mechanisms of biochemical reactions within crowded environments},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-94593},
  school      = {Universit{\"a}t Potsdam},
  pages     = {vii, 112},
  year      = {2016},
  abstract  = {The cell interior is a highly packed environment in which biological macromolecules evolve and function. This crowded media has effects in many biological processes such as protein-protein binding, gene regulation, and protein folding. Thus, biochemical reactions that take place in such crowded conditions differ from diluted test tube conditions, and a considerable effort has been invested in order to understand such differences. In this work, we combine different computationally tools to disentangle the effects of molecular crowding on biochemical processes. First, we propose a lattice model to study the implications of molecular crowding on enzymatic reactions. We provide a detailed picture of how crowding affects binding and unbinding events and how the separate effects of crowding on binding equilibrium act together. Then, we implement a lattice model to study the effects of molecular crowding on facilitated diffusion. We find that obstacles on the DNA impair facilitated diffusion. However, the extent of this effect depends on how dynamic obstacles are on the DNA. For the scenario in which crowders are only present in the bulk solution, we find that at some conditions presence of crowding agents can enhance specific-DNA binding. Finally, we make use of structure-based techniques to look at the impact of the presence of crowders on the folding a protein. We find that polymeric crowders have stronger effects on protein stability than spherical crowders. The strength of this effect increases as the polymeric crowders become longer. The methods we propose here are general and can also be applied to more complicated systems.},
  language  = {en}
}
@phdthesis{Kav2019,
  author    = {Kav, Batuhan},
  title     = {Membrane adhesion mediated via lipid-anchored saccharides},
  doi       = {10.25932/publishup-42879},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-428790},
  school      = {Universit{\"a}t Potsdam},
  pages     = {125},
  year      = {2019},
  abstract  = {Membrane adhesion is a fundamental biological process in which membranes are attached to neighboring membranes or surfaces. Membrane adhesion emerges from a complex interplay between the binding of membrane-anchored receptors/ligands and the membrane properties. In this work, we study membrane adhesion mediated by lipid-anchored saccharides using microsecond-long full-atomistic molecular dynamics simulations. Motivated by neutron scattering experiments on membrane adhesion via lipid-anchored saccharides, we investigate the role of LeX, Lac1, and Lac2 saccharides and membrane fluctuations in membrane adhesion. We study the binding of saccharides in three different systems: for saccharides in water, for saccharides anchored to essentially planar membranes at fixed separations, and for saccharides anchored to apposing fluctuating membranes. Our simulations of two saccharides in water indicate that the saccharides engage in weak interactions to form dimers. We find that the binding occurs in a continuum of bound states instead of a certain number of well-defined bound structures, which we term as "diffuse binding". The binding of saccharides anchored to essentially planar membranes strongly depends on separation of the membranes, which is fixed in our simulation system. We show that the binding constants for trans-interactions of two lipid-anchored saccharides monotonically decrease with increasing separation. Saccharides anchored to the same membrane leaflet engage in cis-interactions with binding constants comparable to the trans-binding constants at the smallest membrane separations. The interplay of cis- and trans-binding can be investigated in simulation systems with many lipid-anchored saccharides. For Lac2, our simulation results indicate a positive cooperativity of trans- and cis-binding. In this cooperative binding the trans-binding constant is enhanced by the cis-interactions. For LeX, in contrast, we observe no cooperativity between trans- and cis-binding. In addition, we determine the forces generated by trans-binding of lipid-anchored saccharides in planar membranes from the binding-induced deviations of the lipid-anchors. We find that the forces acting on trans-bound saccharides increase with increasing membrane separation to values of the order of 10 pN. The binding of saccharides anchored to the fluctuating membranes results from an interplay between the binding properties of the lipid-anchored saccharides and membrane fluctuations. Our simulations, which have the same average separation of the membranes as obtained from the neutron scattering experiments, yield a binding constant larger than in planar membranes with the same separation. This result demonstrates that membrane fluctuations play an important role at average membrane separations which are seemingly too large for effective binding. We further show that the probability distribution of the local separation can be well approximated by a Gaussian distribution. We calculate the relative membrane roughness and show that our results are in good agreement with the roughness values reported from the neutron scattering experiments.},
  language  = {en}
}
@phdthesis{Albus2003,
  author    = {Albus, Alexander P.},
  title     = {Mixtures of Bosonic and Fermionic atoms},
  url       = {http://nbn-resolving.de/urn:nbn:de:kobv:517-0001065},
  school      = {Universit{\"a}t Potsdam},
  year      = {2003},
  abstract  = {Ziel der Arbeit war die systematische theoretische Behandlung von Gemischen aus bosonischen und fermionischen Atomen in einem Parameterbereich, der sich zur Beschreibung von aktuellen Experimenten mit ultra-kalten atomaren Gasen eignet. Zuerst wurde der Formalismus der Quantenfeldtheorie auf homogene, atomare Boson-Fermion Gemische erweitert, um grundlegende Gr{\"o}ßen wie Quasiteilchenspektren, die Grundzustandsenergie und daraus abgeleitete Gr{\"o}ßen {\"u}ber die Molekularfeldtheorie hinaus zu berechnen. Unter Zuhilfenahme der dieser Resultate System wurde ein Boson-Fermion Gemisch in einem Fallenpotential im Rahmen der Dichtefunktionaltheorie beschrieben. Daraus konnten die Dichteprofile ermittelt werden und es ließen sich drei Bereiche im Phasendiagramm identifizieren: (i) ein Bereich eines stabilen Gemisches, (ii) ein Bereich, in dem die Spezies entmischt sind und (iii) ein Bereich, in dem das System kollabiert. Im letzten dieser drei F{\"a}llen waren Austausch--Korrelationseffekte signifikant. Weiterhin wurde die {\"A}nderung der kritischen Temperatur der Bose-Einstein-Kondensation aufgrund der Boson-Fermion-Wechselwirkung berechnet. Verursacht wird dieser Effekt von Dichtumverteilungen aufgrund der Wechselwirkung. Dann wurden Boson-Fermion Gemische in optischen Gittern betrachtet. Ein Stabilit{\"a}tskriterium gegen Phasenentmischung wurde gefunden und es ließen sich Bedingungen f{\"u}r einen suprafl{\"u}ssig zu Mott-isolations Phasen{\"u}bergang angeben. Diese wurden sowohl mittels einer Molekularfeldrechnung als auch numerisch im Rahmen eines Gutzwilleransatzes gefunden. Es wurden weiterhin neuartige frustrierte Grundzust{\"a}nde im Fall von sehr großen Gitterst{\"a}rken gefunden.},
  language  = {en}
}