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Charge states and energy loss of heavy ions after passing an inductively coupled plasma target
(2019)
In various kinds of fields such as accelerator physics, warm dense matter, high energy density physics, and inertial confinement fusion, heavy ions beam-plasma interaction plays an important role, and abundant investigations have been and are being carried out. Taking advantage of a good level of understanding on the interaction between a swift heavy ions beam and a hydrogen gas discharge plasma, an engineering application of a spherical theta-pinch device as a plasma stripper for FAIR (facility for antiproton and ion research) and a scientific application of a swift heavy ions beam as a novel plasma diagnostic tool are proposed and investigated.
The spherical theta-pinch device is manufactured, improved, and comprehensively tested for its application as a plasma stripper. The device is mainly composed of an evacuated glass vessel that can be filled with gas (for example: hydrogen) and a LRC circuit including a capacitors bank and a set of coils. Discharging the device at an initial hydrogen pressure in the glass vessel and an operation voltage for the capacitors bank, a circuit current oscillates in the LRC circuit. The oscillating circuit current in the set of coils induces a corresponding alternating magnetic field inside the glass vessel to ignite and maintain a hydrogen plasma.
Based on the built setup of circuit and plasma diagnostics, the measurements of circuit current, plasma light emission, plasma shape, and hydrogen Balmer series are carried out. The recorded signals of the circuit current and the plasma light emission of many consecutively repetitive discharges overlap perfectly, which indicate a very good reproducibility of the parameters of the LRC circuit during discharge and the generated plasma. From the measured circuit current, a real energy transfer efficiency is calculated by our proposed new model, which shows its overall tendency varying with the hydrogen pressure and the operation voltage, including the maximum value of 25% occurring at an initial hydrogen pressure of around 25 Pa and a maximum operation voltage of 14 kV. So, the discharge at an initial hydrogen pressure of 20 Pa and an operation voltage of 14 ...
HADES (High Acceptance DiElectron Spectrometer), located at GSI, is a versatile detector for precise spectroscopy of e+ e- pairs and charged hadrons produced on a fixed target in a 1 to 3.5 AGeV kinetic beam energy region. The main experimental goal is to investigate properties of dense nuclear matter created in heavy ion collisions and learn about in-medium hadron properties.
In the HADES set-up 24 Mini Drift Chambers (MDC) allow for track reconstruction and determining the particle momentum by exploiting charged particle deflection in a magnetic field. In addition, the drift chambers contribute to particle identification by measuring the energy loss. The read-out concept foresees each sensing wire to be equipped with a preamplifier, analog pulse shaper and discriminator. In the current front-end electronics, the ASD-8 ASIC comprises the above modules. Due to limitations of the current on-board time to digital converters (TDC), especially regarding higher reaction rates expected at the future FAIR facility (HADES at SIS-100), the electronics need to be replaced by new board featuring multi-hit TDCs. Whereas ASD-8 chips cannot be procured anymore, a promising replacement candidate is the PASTTREC ASIC, developed by JU Krakow, which was tested w.r.t. suitability for MDC read-out in a variety of set-ups and, where possible, in direct comparison to ASD-8.
The timing precision, being the most crucial performance parameter of the joint system of detector and read-out electronics, was assessed in two different set-ups, i.e. a cosmic muon tracking set-up and a beam test at the COSY accelerator at Juelich using a minimum ionizing proton beam.
The beam test results were reproduced and can thus be quantitatively explained in a three dimensional GARFIELD simulation of a HADES MDC drift cell. In particular, the simulation is able to describe the characteristic dependence of the time precision on the track position within the cell.
A circuit simulation (SPICE) was used to closely model the time development of a raw drift chamber pulse, measured as a response to X-rays from a 55 Fe source. The insights gained from this model were used for attributing realistic charge values to the time over threshold values measured with the read-out ASICs in a charge calibration set-up. Furthermore, a high-level circuit simulation of the PASTTREC shaper is implemented to serve as a demonstration of the effect of the individual shaping and tail cancellation stages which are present in both ASICs.
We study the Wigner function for massive spin-1/2 fermions in electromagnetic fields. The Wigner function is analytically solved in five cases when electromagnetic fields are constants. For a general space-time dependent field configuration, we use the method of semi-classical expansion and solved the Wigner function at linear order in the Planck's constant. At the same order, we obtained a generalized Boltzmann equation for particle distribution, and a generalized BMT equation for spin polarization. Using the Wigner function, we calculated some physical quantities in a thermal equilibrium system.
In this work we provided additional insights into our understanding of bulk QCD matter through the study of the transport coeffcients which govern the non-equilibrium microscopical processes of statistical ensembles. Specically, we focused on the low energy regime corresponding to the hadron gas, as the properties of this region of the phase diagram are still relatively unknown, and existing calculations for the transport coeffcients are either scarce, contradictory, or somewhat limited in scope; this thesis' main goal was thus to shed some light on this by providing new independent calculations of these quantities.
We subsequently presented two formalisms which can be used to calculate transport coeffcients. The first one (which also was the main tool we used in the following chapters to produce our results) relies on the development of so-called Green-Kubo formulas, which relate non-equilibrium dissipative fluctuations with transport coeffcients; notably, the off-diagonal components of the energy-momentum tensor are shown to be related to the shear viscosity, its diagonal components to the bulk viscosity and fluctuations in the electric current can be related to the electric conductivity. We additionally introduced two new conductivities, namely the baryon-electric and strange electric conductivities, which we dubbed, together with the already known electric one, the "cross-conductivity", which encodes information about how electric fluctuations are correlated to changes in electric, baryonic or strange currents, or vice-versa. The second way of calculating transport coeffcient which we discussed consists in linearizing the collision term of the Boltzmann equation through the Chapman-Enskog formalism. While in principle providing direct semi-analytical results for the transport coeffcients, this approach is complicated to implement when more than a few species are considered, and as such was then mostly used as a tool to calibrate our Green-Kubo calculations.
The hadron gas model that we used for all calculations, namely the transport approach SMASH, was then presented. The main features of the model were explained, such as the collision criterion, the considered degrees of freedom and the specific way in which they microscopically interact with each other. It was verified that SMASH does reproduce analytical results of the Boltzmann equation in an expanding universe scenario, thus showing the equivalence of this transport approach and the associated kinetic theory results. A special care was taken to detail the ways in which a state of thermal and chemical equilibrium (which is necessary for Green-Kubo relations to be valid) can be reached and described using SMASH.
...
The last decades have brought tremendous progress in understanding the phase structure of the strongly interacting matter. This has been driven by studying heavy-ion collisions on the experimental side and Lattice QCD, functional approaches to QCD, perturbation theory and effective theories on the theoretical side. Of particular interest is the transition from hadrons to partonic degrees of freedom which is expected to occur at high temperatures or high baryon densities. These phases play an important role in the early universe and the core of neutron stars. Nowadays, the existence of a deconfined phase, i.e. Quark Gluon Plasma (QGP) and its phase transition at vanishing and small net-baryon densities, are well established. However, the situation at larger densities is less clear.
Complementary to the studies of matter at high temperatures and low net-baryon densities performed at RHIC and LHC, the proposed Compressed Baryonic Matter (CBM) experiment at the future FAIR facility, aims to explore the QCD phase diagram at very high baryon-net densities and moderate temperatures. The CBM research program includes the search for the deconfinement phase transition, the study of chiral symmetry restoration in super dense baryonic matter, the search for the critical endpoint, and the study of the nuclear equation of state at high densities. While other experiments (STAR-BES at BNL, BM@N at NICA) are suited to measure bulk observables, CBM is explicitly designed to access rare observables, such as multi-strange hadrons, dileptons, hypernuclei and charmonium. Therefore, a key feature of CBM is the very high interaction rate, exceeding those of contemporary and proposed nuclear collision experiments by several orders of magnitude. However, some of the rare probes have a complex signature, hidden in a background of several hundreds of charged tracks. This forbids a conventional, hardware-triggered readout; instead, the experiment combines self-triggered front-end electronics, fast and free-streaming data transport, online event reconstruction and online event selection.
The central detector for tracking and momentum determination of charged particles in the CBM experiment is the Silicon Tracking System (STS). It is designed to measure up to 700 charged particles in nucleus-nucleus collisions between 0.1 and 10 MHz interaction rate, to achieve a momentum resolution in 1 Tm dipole magnetic field better than 2%, and to be capable of identifying complex particle decays topologies, e.g., such with strangeness content. The STS comprises 8 tracking stations equipped with double-sided silicon microstrip sensors. Two million channels are read out with self-triggering electronics, matching the data streaming and on-line event analysis concept applied throughout the experiment. The detector’s functional building block consists of a silicon sensor, aluminum-kapton microcables and two front-end electronics boards integrated in a module. The custom-designed ASIC (STS-XYTER) implements the analog front-end, the digitizer and the generation of individual hit data for each signal.
Design of the front-end chip requires finding an optimal solution for time and input charge measurements with tight constraints: small area (58 μm channel pitch), low noise levels (below 1500 ENC(e− )), low power consumption (610 mW/channel), radiation hard architecture and speed requirements. Being a part of the first processing stage in the full readout and data acquisition chain, the characterization of the chip and its integration with the detector components is a crucial task. In this work, various methods and tools are established for testing and qualifying the ASIC analog front-end. A procedure for amplitude and timing calibration is developed using different functionalities of the chip. The procedure is optimized for our prototype system in order to achieve the best accuracy in the shortest amount of time. Results were verified using a gamma source and an external pulse generator, showing discrepancies below 5%.
Among the multiple operation requirements of the ASIC, the noise performance is of essential importance. The characterization of the chip noise is carried out as a function of a large number of parameters such as: low-voltage power regulators, input capacitance, shaping time, temperature and bond’s protective glue (glob-top). These studies allowed to optimize the ASIC configuration settings, to identify possible malfunctions in the low voltage powering scheme and to select possible glob-top materials to be used in the module assembly. Moreover, important differences are found among odd and even channels, which main cause was related to the bias scheme of the amplifiers of the two groups of channels. This effect has been corrected in the new version (v2.1) of the ASIC.
Despite the STS front-end electronics being located outside of the physics acceptance, they will be exposed to high fluxes of charged particles. Considering the SIS100 possible running scenario, the lifetime dose at the location of the electronics is expected not to exceed 800 krad. Consequently, the STS-XYTERv2 ASIC implements a radiation hard design based on dual-interlocked cells (DICE), and triple modular redundancy (TMR).
Multiple dedicated beam campaigns were carried out to evaluate the ASIC’s design in terms of immunity to single event upsets (SEU) errors and overall performance after a lifetime doses. The DICE cell SEU cross section was measured in a high-intensity proton beam. Result show a significant improvement of the SEU immunity in the STS-XYTERv2 compared to its predecessor, and allows to estimate the upset rate in the CBM running scenario, resulting in less than one SEU/ASIC/day.
The studies on the total ionizing dose (TID) show that the overall noise levels for the ASIC, at the end of the experiment lifetime, are expected to increase by approximately 40 – 60%. Moreover, they demonstrated that short periods of annealing at room temperature can favorably influence the noise performance of the chip.
The assembly and test of the STS modules, a complex process with multiple stages and a long learning curve, is illustrated in different parts of this work. The first prototype modules were built with the front-end board type B (FEBs-B), capable of reading out 128 channels for p and n side respectively. The studies were conducted with a relativistic proton beam of 1.7 GeV/c momentum at the COSY accelerator facility, Research Center Juelich, in March 2018. The campaign brought valuable insights to the development of an effective grounding and powering scheme for reading out the detectors. The signal-to-noise was measured for one of the prototype modules, resulting in values larger than 15 for both polarities. A deeper analysis into the collected data allowed the identification of a logic error in the ASIC that affected the readout rate and the quality of the data. This issue was corrected in the new version of the chip.
A precursor of the STS detector, named mini-STS (mSTS), has been built within the mCBM project carried out in FAIR Phase0. mSTS was built from 4 fully assembled detector modules. To ensure the proper operation of the ASICs that were used in the module assembly, it was required to develop a rigorous quality assurance procedure. A dedicated setup was built based on a custom designed pogo-pin station and a total of 339 chips were tested. More than 90% of good-quality and operational ASICs were obtained. In the mCBM beam campaign of March 2019, four detector modules were successfully operated in a close-to-final readout chain and valuable data were collected. The mSTS detector was exposed to the products of Ag+Au collisions at energies above 1.58 AGeV and overall interaction rates up to 106 , which resembles the real conditions of the CBM experiment.
Along this work, significant progress for the development of the STS detector modules was achieved. Techniques for characterization of the front-end electronics and the complete detector system were developed and worked out. They will be applied for QA of the components during the series production.
In this thesis, we presented the theoretical description of the magnetic properties of various frustrated spin systems. Especially in search of exotic states, such as quantum spin liquids, magnetically frustrated systems have been subject of intense research within the last four decades. Relating experimental observations in real materials with theoretical models that capture those exotic magnetic phenomena has been one of the great challenges within the field of magnetism in condensed matter.
In order to build such a bridge between experimental observations and theoretical models, we followed two complementary strategies in this thesis. One strategy was based on first principles methods that enable the theoretical prediction of electronic properties of real materials without further experimental input than the crystal structure. Based on these predictions, low-energy models that describe magnetic interactions can be extracted and, through further theoretical modelling, can be compared to experimental observations. The second strategy was to establish low-energy models through comparison of data from experiments, such as inelastic neutron scattering intensities, with calculated predictions based on a variety of plausible magnetic models guided by microscopic insights. Both approaches allow to relate theoretical magnetic models with real materials and may provide guidance for the design of new frustrated materials or the investigation of promising models related to exotic magnetic states.
Die vorliegende Dissertation untersucht die Nichtgleichgewichtsdynamik von relativistischen Schwerionenkollisionen ausgehend von der anfänglichen Produktion von Teilchen durch den Zerfall von Strings, der Bildung eines Quark-Gluon-Plasmas (QGP), dessen kinetische und chemische Äquilibrierung als Funktion der Zeit sowie seine Transporteigenschaften im Gleichgewicht bei endlicher Temperatur und endlichem chemischen Potential. Ein Verständnis der frühen Phase der Schwerionenkollisionen ist insbesondere von großen Interesse, da letztere eine Verbindung zwischen den ersten Nukleon-Nukleon Kollisionen und der Quark-Gluon-Plasma Phase herstellen, die zu einem späteren Zeitpunkt ein gewisses Maß an Thermalisierung zeigt. Allerdings können nur Nichtgleichgewichts-Theorien eine Verbindung zwischen dem anfänglichen QGP und seiner - zumindest partiellen - Thermalisierung herstellen. Um die Dynamik eines stark wechselwirkenden Mediums wie des Quark-Gluon-Plasmas zu beschreiben, reichen übliche Transportgleichungen (basierend auf der Boltzmann-Gleichung) nicht aus und es müssen komplexere Theorien, die auch für stark korrelierte Medien geeignet sind, angewendet werden. Hier kommen hydrodynamische Simulationen oder Transportrechnungen - basierend auf verallgemeinerten Transportgleichungen - zum Einsatz. Solche verallgemeinerte Transportgleichungen, wie die Kadanoff-Baym-Gleichungen, ergeben sich aus der quantenmechanischen Nichtgleichgewichts-Vielteilchentheorie, in der Green’s- Funktionen in Minkowski Raum-Zeit die interessierenden Größen sind, um die Dynamik des betrachteten Mediums zu beschreiben. Mit geeigneten Näherungen kann man so kinetische Transportgleichungen erhalten, die eine einheitliche Behandlung von stabilen und instabilen Teilchen auch außerhalb des Gleichgewichts ermöglichen. Diese Bestandteile bilden die Basis des Transportmodells Parton-Hadron-String Dynamics (PHSD), welches daher ein geeignetes ’Instrument’ ist um die verschiedenen Phasen einer Schwerionenkollision zu analysieren, egal ob die verschiedenen Formen der Materie im Gleichgewicht sind oder nicht.
In dieser Arbeit wird zunächst die Quantenchromodynamik (QCD) vorgestellt und erklärt, wie diese Theorie im Laufe der Jahre entwickelt wurde um ein wichtiger Bestandteil des Standardmodells der Teilchenphysik zu werden. Wir werden weiterhin die verbleibenden Herausforderungen in unserem Verständnis der QCD vorstellen, die sich primär auf das Phasendiagramm der stark wechselwirkenden Materie konzentrieren.
Im zweiten Kapitel untersuchen wir die Nichtgleichgewichts-Feldtheorie und die damit verbundenen Techniken - wie die Keldysh-Kontur - zur Beschreibung der Green’schen Funktionen als wesentlichen Freiheitsgrade. Wir leiten die Evolutionsgleichung für die Green’schen Funktionen her, d. h. die Kadanoff Baym-Gleichungen am Beispiel einer skalaren Feldtheorie.
Im nächsten Kapitel wird das Transportmodell Parton-Hadron-String Dynamics (PHSD), welches die Anwendung der verallgemeinerten Transportgleichungen zur Beschreibung relativistischer Schwerionenkollisionen darstellt, vorgestellt.
Wir beginnen im Kapitel 4 mit der Untersuchung der Nichtgleichgewichtseigenschaften des Quark-Gluon-Plasmas, welches bei relativistischen Schwerionenkollisionen erzeugt wird. Zu diesem Zweck vergleichen wir die Quark-Gluon-Plasmaentwicklung aus dem PHSD mit einem viskosen hydrodynamischen Modell, bei dem ein lokales kinetisches und chemisches Gleichgewicht angenommen wird.
Im Kapitel 5 konzentrieren wir uns auf das frühe Vorgleichgewichtsstadium ultra-relativistischer Schwerionenkollisionen und insbesondere auf die Freiheitsgrade der QGP-Phase in diesem Stadium. Wir untersuchen die Auswirkungen eines QGP, welches anfänglich entweder aus einem System aus massiven Gluonen (Szenario I) oder alternativ aus Quarks und Antiquarks (Szenario II) besteht. Das nächste Kapitel wird ebenfalls die Produktion von Teilchen im Frühstadium von Schwerionenkollisionen behandeln, jedoch bei niedrigeren Kollisionsenergien. Hier wird eine mikroskopische Beschreibung des K+/pi+-Verhältnisses im Vordergrund stehen, d. h. die Erklärung des Maximums in diesem Verhältnis bei etwa 30 A GeV ("Horn") in zentralen Au+Au (oder Pb+Pb) Kollisionen. Insbesonders werden wir die Modifikation des String-Fragmentierungsprozesses (über den Schwinger-Mechanismus) in einer Umgebung mit hoher hadronischer Dichte aufgrund der teilweisen Wiederherstellung der chiralen Symmetrie untersuchen.
In Kapitel 7 erweitern wir das Parton-Hadron-String Dynamics (PHSD)-Transportmodell im partonischen Sektor, indem wir explizit die totalen und differentiellen partonischen Streuungsquerschnitte als Funktion der Temperatur T und des baryochemischen Potentials μB berechnen auf der Basis der effektiven Propagatoren und Kopplungen des Dynamical QuasiParticle Models (DQPM), welches auch die generelle Zeitentwicklung der partonischen Freiheitsgrade beschreibt. Wir finden nur eine sehr bescheidene Änderung von n/s mit dem baryonchemischen Potential μB in Abhängigkeit von der skalierten Temperatur T/Tc(μB). Dies gilt auch für eine Vielzahl von hadronischen Observablen aus zentralen A+A Kollisionen im Energiebereich von 5 GeV < vsNN < 200 GeV bei der Implementierung der differentiellen Querschnitte in das PHSD-Modell. Da wir in Schwerionen-Observablen nur kleine Spuren einer μB-Abhängigkeit finden - obwohl die effektiven Partonenmassen und Kollisionsbreiten sowie deren Partonenquerschnitte eindeutig von μB abhängen - impliziert dies, dass man eine beträchtliche Partonendichte und ein großes Raum-Zeit-QGP-Volumen zur Untersuchung der Dynamik in der partonischen Phase benötigt. Diese Bedingungen sind nur bei hohen Kollisionsenergien erfüllt, bei denen μB jedoch eher niedrig ist. Wenn andererseits die Kollisionsenergie verringert und somit μB erhöht wird, wird die hadronische Phase dominant und dementsprechend wird es zunehmend schwieriger, Signale aus der Partonendynamik auf der Basis von "Bulk"-Observablen zu extrahieren.
High-energetic heavy-ion collisions offer the unique opportunity to produce and to study dense nuclear matter in the laboratory. The future Facility for Antiproton and Ion Research (FAIR) in Darmstadt, Germany, will provide beams of heavy nuclei up to kinetic energies of 11 GeV/nucleon. At these energies, the nuclear matter in the collision zone of two nuclei will be compressed to densities of up to 5 − 10 times the saturation density of atomic nuclei, similar to matter densities existing in the core of massive neutron stars. Under those conditions, nucleons are expected to melt and form a new state of matter, which consists of quarks and gluons, the so called Quark-Gluon Plasma (QGP). The search for such a phase transition from hadronic to partonic matter, and the exploration of the nuclear matter equation-of-state at high densities are the major goals of heavy ion experiments worldwide.
The observables, which are proposed to probe the properties of dense nuclear matter and possible phase transitions, include multi-strange hyperons, antibaryons, lepton pairs, collective flow of identified particles, fluctuations and correlations of various particles, particles containing charm quarks, and hypernuclei. These observables have to be measured in multi-dimensions, i.e. as function of collision centrality, rapidity, transverse momentum, energy, emission angle, etc., which requires extremely high statistics. Moreover, some of these particles are produced very rarely.
Therefore, the Compressed Baryonic Matter (CBM) experiment at FAIR is designed to run at collision rates of up to 10 MHz, in order to perform measurements with unprecedented precision. Due to the complicated decay topology of many observables, no hardware trigger can be applied, and the data have to be analysed online in order to filter out the interesting events.
This strategy requires free-streaming read-out electronics, which provides time stamps to all detector signals, a high performance computer center, and high-speed reconstruction algorithms, which provide an online track and event reconstruction based on time and position information of the detector hits (”4-D“ reconstruction).
The core detector of the CBM experiment is the Silicon Tracking System (STS). The main task of the STS is to provide track reconstruction and momentum de- termination of charged particles originating from beam-target interactions. To fulfil the whole tasks the STS is located in the large gap of a superconducting dipole magnet with a bending power of 1 Tm providing momentum measurements for charged particles. The STS comprises 8 detector stations, which are positioned from 30 cm to 100 cm downstream the target. The corresponding active area of the stations grows up from 40×50 cm 2 up to 100×100 cm 2 with a totalarea of 4 m2. The silicon double-sided sensors exhibit 1024 strips on each side with a stereo angle at p-side of 7.5 ◦ and a strip pitch of 58 μm. The strip length ranges from 2 cm for sensors located in a close vicinity to the beam axis, up to 12 cm for other sensors where the flux of the reaction products drops down substantially. In total, the STS consist of 896 sensors mounted on 106 detector ladders. The detector readout electronics dissipates 40 kW and will be equipped with a CO 2 bi-phase cooling system. The detector including electronics will be mounted in a thermal enclosure to allow for sensor operation at below −5 ◦ C which minimizes radiation induced leakage currents.
The task of the STS is to measure the trajectories of up to 800 charged particles per collision with an efficiency of more than 95% and a momentum resolution of 1 − 2%. In order to guarantee the required performance over the full lifetime of the CBM experiment, the detector system has to have a low material budget, a high granularity, a high signal-to-noise (SNR) ratio, and a high radiation tolerance. As a result of optimisation studies, the STS consists of double-sided silicon microstrip sensors, about 300 μm thick, which have to provide a SNR ratio of more than 10, even after radiation with the expected equivalent lifetime fluence of 10 14 1 MeV n eq cm −2.
This thesis is devoted to the characterization of double-sided silicon microstrip sensors with an emphasis on investigation of their radiation hardness. Different prototypes of double sided silicon sensors produced by two vendors have been irradiated by 23 MeV protons up to the double life time fluence for the CBM experiment (2 × 10 14 1 MeV n eq cm −2 ).
The sensor properties have been characterised before and after irradiation. It was found, that after irradiation with a double lifetime fluence the leakage current increased 1000 times, which results in an increased shot noise. Moreover, the relative charge collection efficiency of irradiated with respect to non-irradiated sensors drops down to 85% for the lifetime equivalent fluence, and down to 73% for the double lifetime fluence, both for the p-side and n-side. For non-irradiated sensors the SNR was found to be in the range of 20 − 25, whereas for irradiated sensors it dropped down to 12 − 17.
In addition to the sensor characterization, a part of this thesis was devoted to the optimisation of the sensor readout scheme. In order to investigate the possible increase of SNR, and to reduce the number of readout channels in the outer aperture of STS, three versions of routing lines have been realized for the p-side readout of the sensor prototype, and have been tested in the laboratory and under beam conditions.
The tests have been performed with different inclination angles between beam direction and sensor surface, corresponding to the polar angle acceptance of the CBM experiment, which is from 2.5 ◦ to 25 ◦.
As a result of the studies carried out in this thesis work, the radiation hardness of the double-sided silicon microstrip sensors developed for the CBM STS detector was confirmed. Also the advantage of individual read-out of sensor channels in the lateral regions of the detector was verified. This allowed to start the tendering process for sensor series production in industry, an important step towards the construction of the detector in the coming years.
The diffusive behavior of macromolecules in solution is a key factor in the kinetics of macromolecular binding and assembly, and in the theoretical description of many experiments. Experiments on high-density protein solutions have found that a slow down of the diffusion dynamics is larger than expected from colloidal theory for non-interaction hard-spheres. It has also been shown that the rotational diffusion anisotropy in high-density protein solutions is larger than in dilute ones. High-density protein solutions are a complex fluid that is different from the neat fluid assumption used in the hydrodynamic theory. It is therefore important to have methods to accurately calculate the translational and rotational diffusion tensor from simulations as well as simulation algorithms to explore high-density solutions.
Simulations provide a powerful tool to study diffusion in complex fluids. They can be used to study the macroscopic and microscopic effects of complex fluids on the diffusive behavior. There has been already a lot of work done to accurately simulate diffusion and to determine the diffusion coefficients from simulations.
The translational diffusion of molecules in simple and complex liquids can be determined with high accuracy from simulations. This is not yet the case for rotational diffusion. Existing algorithms to calculate the rotational diffusion coefficients from simulations make assumptions about the shape of the protein or only work at short times. For the simulation of diffusive behavior of macromolecules two options exist today. An all-atom integrator with explicit solvent molecules or coarse-grained (CG) simulations with an implicit solvent. CG simulations of dynamic behavior with implicit solvent are also called Brownian dynamics (BD) simulations. For the CG simulations the Ermak-McCammon algorithm is often used to solve the underlying Langevin equation. The algorithm is an extension of the Euler-Maruyama integrator to include translation and rotation in three dimensions. This algorithm only correctly reproduces the equilibrium probability for short time-steps and the error depends linearly on the time-step. It has been shown that Monte Carlo based algorithms can produce BD for translational dynamics, when appropriately parametrized. The advantage of Monte Carlo based algorithm is that they will reproduce the correct equilibrium distribution independent of the chosen time-step. This in return allows choosing larger time-steps in simulations. The aim of this thesis is to develop novel´methods to accurately determine the rotational diffusion coefficient from simulations and extend existing Monte Carlo algorithms to include rotational dynamics.
The first project addresses the question of how to accurately determine the rotational diffusion coefficients from simulations. We develop a quaternion based method to calculate the rotational diffusion tensor from simulations and a theory for the effects of periodic boundary conditions (PBC) on the rotational diffusion coefficient in simulations.
Our method for calculating rotational diffusion coefficients is based on the quaternion covariances from Favro for a freely rotating rigid molecule. The covariances as formulated by Favro are only valid in the principal coordinate system (PCS) of the rotation diffusion tensor. The covariances can be generalized for an arbitrary reference coordinate system (RCS), i.e., a simulation, given the principle axes of the rotational diffusion tensor in the RCS. We show that no prior knowledge of the diffusion tensor and its principal axes is required to calculate the generalized covariances from simulations using common root-mean-square distance (RMSD) procedures. We develop two methods to fit the covariances calculated from simulations to our generalized equations to fit the rotational diffusion tensor. In the first method we minimize the sum of the squared error deviations between model and simulation data. For this six dimensional optimization we use a simulated annealing algorithm. Alternatively the rotational diffusion tensor can also be determined from a eigenvalue decomposition of covariance after integration. To minimize the effects of sampling noise in the integration we first apply a Laplace-transformation to smooth the covariances at large times. For ideal sampling the resulting rotational diffusion coefficient should be independent of the value of the Laplace variable. In practice, however, the best results are achieved using a value close to the inverse autocorrelation time of the rotational motion.
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