@misc{Braun2009,
  type      = {Master Thesis},
  author    = {Braun, Katinka},
  title     = {„Optimierung der Methodik zur Erstellung von Hochwassergefahrenkarten durch verbesserte Nutzung hochaufgel{\"o}ster digitaler Gel{\"a}ndemodelle"},
  doi       = {10.25643/bauhaus-universitaet.1223},
  url       = {http://nbn-resolving.de/urn:nbn:de:gbv:wim2-20090202-14610},
  school      = {Bauhaus-Universit{\"a}t Weimar},
  year      = {2009},
  abstract  = {In Baden-W{\"u}rttemberg werden derzeit f{\"u}r ca. 12.500 km Gew{\"a}sser Hochwassergefahrenkarten erstellt. Hierf{\"u}r sind umfangreiche hydraulische Berechnungen erforderlich, die es zu optimieren gilt. Bei der Wasserspiegellagenermittlung kommen zumeist eindimensionale Berechnungsverfahren zum Einsatz bei denen die Topografie der Gew{\"a}sser und Vorl{\"a}nder {\"u}ber Querprofile erfasst werden. Im Rahmen der Hochwassergefahrenkartenerstellung werden diese Querprofile zum einen im Bereich des Gew{\"a}ssers {\"u}ber kostenintensive, terrestrische Vermessung und zum anderen im Bereich der Vorl{\"a}nder {\"u}ber ein digitales Gel{\"a}ndemodell (DGM) bestimmt. In der vorliegenden Arbeit wurde ein Verfahren entwickelt, mit dessen Hilfe die Querprofilerstellung und damit insgesamt die Methodik zur Erstellung der Hochwassergefahrenkarten verbessert werden kann.Das Verfahren erm{\"o}glicht es, unter optimaler Ausnutzung sowohl der vorhandenen terrestrischen Vermessungsdaten, als auch des hochaufgel{\"o}sten digitalen Gel{\"a}ndemodells zus{\"a}tzlich zur vorhandenen Vermessung an beliebigen Stellen Erg{\"a}nzungsquerprofile zu generieren. Des Weiteren wurde mittels Sensitivit{\"a}tsanalyse untersucht, welche Auswirkungen eine Verringerung der Anzahl von vermessenen Querprofilen auf die Wasserst{\"a}nde haben.},
  subject      = {Digitales Gel{\"a}ndemodell},
  language  = {de}
}
@inproceedings{Milbradt2003,
  author    = {Milbradt, Peter},
  title     = {Stabilisierte Finite Elemente in der Hydrodynamik},
  doi       = {10.25643/bauhaus-universitaet.332},
  url       = {http://nbn-resolving.de/urn:nbn:de:gbv:wim2-20111215-3327},
  year      = {2003},
  abstract  = {Hydro- und morphodynamischen Prozesse in Binnengew{\"a}ssern und im K{\"u}stennahbereich erzeugen hochkomplexe Ph{\"a}nomene. Zur Beurteilung der Entwicklung von K{\"u}stenzohnen, von Flussbetten sowie von Eingriffen des Menschen in Form von Schutzbauwerken sind geeignete numerische Modellwerkzeuge notwendig. Es wird ein holistischer Modellansatz zur Approximation gekoppelter Seegangs-, Str{\"o}mungs- und Morphodynamischer Prozesse auf der Basis stabilisierter Finiter Elemente vorgestellt. Der Großteil der Modellgleichungen der Hydro- und Morphodynamik sind Transportgleichungen. Dem Transportcharakter dieser Gleichungen entsprechend wird ein stabilisiertes Finites Element Verfahren auf Dreiecken vorgestellt. Die vorgestellte Approximation entspricht einem streamline upwinding Petrov-Galerkin-Verfahrens f{\"u}r vektorwertige mehrdimensionale Probleme, bei dem der Fehler eines Standard-Galerkin-Verfahrens mit Hilfe eines Upwinding-Koeffizienten minimiert wird. Die Wahl des Upwinding-Koeffizienten ist {\"u}bertragbar auf andere Problemklassen und basiert ausschließlich auf dem Charakter der zugrundeliegene Das Modell wurde f{\"u}r Seegangs- und Str{\"o}mungs-Untersuchungen im Jade-Weser-{\"A}stuar an der deutschen Nordseek{\"u}ste eingesetzt.},
  subject      = {Hydrodynamik},
  language  = {de}
}
@phdthesis{Ashour,
  author    = {Ashour, Mohammed},
  title     = {Electromechanics and Hydrodynamics of Single Vesicles and Vesicle Doublet Using Phase-Field Isogeometric Analysis},
  doi       = {10.25643/bauhaus-universitaet.6400},
  url       = {http://nbn-resolving.de/urn:nbn:de:gbv:wim2-20230628-64003},
  school      = {Bauhaus-Universit{\"a}t Weimar},
  pages     = {175},
  abstract  = {Biomembranes are selectively permeable barriers that separate the internal components of the cell from its surroundings. They have remarkable mechanical behavior which is characterized by many phenomena, but most noticeably their fluid-like in-plane behavior and solid-like out-of-plane behavior. Vesicles have been studied in the context of discrete models, such as Molecular Dynamics, Monte Carlo methods, Dissipative Particle Dynamics, and Brownian Dynamics. Those methods, however, tend to have high computational costs, which limited their uses for studying atomistic details. In order to broaden the scope of this research, we resort to the continuum models, where the atomistic details of the vesicles are neglected, and the focus shifts to the overall morphological evolution. Under the umbrella of continuum models, vesicles morphology has been studied extensively. However, most of those studies were limited to the mechanical response of vesicles by considering only the bending energy and aiming for the solution by minimizing the total energy of the system. Most of the literature is divided between two geometrical representation methods; the sharp interface methods and the diffusive interface methods. Both of those methods track the boundaries and interfaces implicitly. In this research, we focus our attention on solving two non-trivial problems. In the first one, we study a constrained Willmore problem coupled with an electrical field, and in the second one, we investigate the hydrodynamics of a vesicle doublet suspended in an external viscous fluid flow. For the first problem, we solve a constrained Willmore problem coupled with an electrical field using isogeometric analysis to study the morphological evolution of vesicles subjected to static electrical fields. The model comprises two phases, the lipid bilayer, and the electrolyte. This two-phase problem is modeled using the phase-field method, which is a subclass of the diffusive interface methods mentioned earlier. The bending, flexoelectric, and dielectric energies of the model are reformulated using the phase-field parameter. A modified Augmented-Lagrangian (ALM) approach was used to satisfy the constraints while maintaining numerical stability and a relatively large time step. This approach guarantees the satisfaction of the constraints at each time step over the entire temporal domain. In the second problem, we study the hydrodynamics of vesicle doublet suspended in an external viscous fluid flow. Vesicles in this part of the research are also modeled using the phase-field model. The bending energy and energies associated with enforcing the global volume and area are considered. In addition, the local inextensibility condition is ensured by introducing an additional equation to the system. To prevent the vesicles from numerically overlapping, we deploy an interaction energy definition to maintain a short-range repulsion between the vesicles. The fluid flow is modeled using the incompressible Navier-Stokes equations and the vesicle evolution in time is modeled using two advection equations describing the process of advecting each vesicle by the fluid flow. To overcome the velocity-pressure saddle point system, we apply the Residual-Based Variational MultiScale (RBVMS) method to the Navier-Stokes equations and solve the coupled systems using isogeometric analysis. We study vesicle doublet hydrodynamics in shear flow, planar extensional flow, and parabolic flow under various configurations and boundary conditions. The results reveal several interesting points about the electrodynamics and hydrodynamics responses of single vesicles and vesicle doublets. But first, it can be seen that isogeometric analysis as a numerical tool has the ability to model and solve 4th-order PDEs in a primal variational framework at extreme efficiency and accuracy due to the abilities embedded within the NURBS functions without the need to reduce the order of the PDE by creating an intermediate environment. Refinement whether by knot insertion, order increasing or both is far easier to obtain than traditional mesh-based methods. Given the wide variety of phenomena in natural sciences and engineering that are mathematically modeled by high-order PDEs, the isogeometric analysis is among the most robust methods to address such problems as the basis functions can easily attain high global continuity. On the applicational side, we study the vesicle morphological evolution based on the electromechanical liquid-crystal model in 3D settings. This model describing the evolution of vesicles is composed of time-dependent, highly nonlinear, high-order PDEs, which are nontrivial to solve. Solving this problem requires robust numerical methods, such as isogeometric analysis. We concluded that the vesicle tends to deform under increasing magnitudes of electric fields from the original sphere shape to an oblate-like shape. This evolution is affected by many factors and requires fine-tuning of several parameters, mainly the regularization parameter which controls the thickness of the diffusive interface width. But it is most affected by the method used for enforcing the constraints. The penalty method in presence of an electrical field tends to lock on the initial phase-field and prevent any evolution while a modified version of the ALM has proven to be sufficiently stable and accurate to let the phase-field evolve while satisfying the constraints over time at each time step. We show additionally the effect of including the flexoelectric nature of the Biomembranes in the computation and how it affects the shape evolution as well as the effect of having different conductivity ratios. All the examples were solved based on a staggered scheme, which reduces the computational cost significantly. For the second part of the research, we consider vesicle doublet suspended in a shear flow, in a planar extensional flow, and in a parabolic flow. When the vesicle doublet is suspended in a shear flow, it can either slip past each other or slide on top of each other based on the value of the vertical displacement, that is the vertical distance between the center of masses between the two vesicles, and the velocity profile applied. When the vesicle doublet is suspended in a planar extensional flow in a configuration that resembles a junction, the time in which both vesicles separate depends largely on the value of the vertical displacement after displacing as much fluid from between the two vesicles. However, when the vesicles are suspended in a tubular channel with a parabolic fluid flow, they develop a parachute-like shape upon converging towards each other before exiting the computational domain from the predetermined outlets. This shape however is affected largely by the height of the tubular channel in which the vesicle is suspended. The velocity essential boundary conditions are imposed weakly and strongly. The weak implementation of the boundary conditions was used when the velocity profile was defined on the entire boundary, while the strong implementation was used when the velocity profile was defined on a part of the boundary. The strong implementation of the essential boundary conditions was done by selectively applying it to the predetermined set of elements in a parallel-based code. This allowed us to simulate vesicle hydrodynamics in a computational domain with multiple inlets and outlets. We also investigate the hydrodynamics of oblate-like shape vesicles in a parabolic flow. This work has been done in 2D configuration because of the immense computational load resulting from a large number of degrees of freedom, but we are actively seeking to expand it to 3D settings and test a broader set of parameters and geometrical configurations.},
  subject      = {Isogeometrische Analyse},
  language  = {en}
}
@phdthesis{Valizadeh,
  author    = {Valizadeh, Navid},
  title     = {Developments in Isogeometric Analysis and Application to High-Order Phase-Field Models of Biomembranes},
  doi       = {10.25643/bauhaus-universitaet.4565},
  url       = {http://nbn-resolving.de/urn:nbn:de:gbv:wim2-20220114-45658},
  school      = {Bauhaus-Universit{\"a}t Weimar},
  abstract  = {Isogeometric analysis (IGA) is a numerical method for solving partial differential equations (PDEs), which was introduced with the aim of integrating finite element analysis with computer-aided design systems. The main idea of the method is to use the same spline basis functions which describe the geometry in CAD systems for the approximation of solution fields in the finite element method (FEM). Originally, NURBS which is a standard technology employed in CAD systems was adopted as basis functions in IGA but there were several variants of IGA using other technologies such as T-splines, PHT splines, and subdivision surfaces as basis functions. In general, IGA offers two key advantages over classical FEM: (i) by describing the CAD geometry exactly using smooth, high-order spline functions, the mesh generation process is simplified and the interoperability between CAD and FEM is improved, (ii) IGA can be viewed as a high-order finite element method which offers basis functions with high inter-element continuity and therefore can provide a primal variational formulation of high-order PDEs in a straightforward fashion. The main goal of this thesis is to further advance isogeometric analysis by exploiting these major advantages, namely precise geometric modeling and the use of smooth high-order splines as basis functions, and develop robust computational methods for problems with complex geometry and/or complex multi-physics. As the first contribution of this thesis, we leverage the precise geometric modeling of isogeometric analysis and propose a new method for its coupling with meshfree discretizations. We exploit the strengths of both methods by using IGA to provide a smooth, geometrically-exact surface discretization of the problem domain boundary, while the Reproducing Kernel Particle Method (RKPM) discretization is used to provide the volumetric discretization of the domain interior. The coupling strategy is based upon the higher-order consistency or reproducing conditions that are directly imposed in the physical domain. The resulting coupled method enjoys several favorable features: (i) it preserves the geometric exactness of IGA, (ii) it circumvents the need for global volumetric parameterization of the problem domain, (iii) it achieves arbitrary-order approximation accuracy while preserving higher-order smoothness of the discretization. Several numerical examples are solved to show the optimal convergence properties of the coupled IGA-RKPM formulation, and to demonstrate its effectiveness in constructing volumetric discretizations for complex-geometry objects. As for the next contribution, we exploit the use of smooth, high-order spline basis functions in IGA to solve high-order surface PDEs governing the morphological evolution of vesicles. These governing equations are often consisted of geometric PDEs, high-order PDEs on stationary or evolving surfaces, or a combination of them. We propose an isogeometric formulation for solving these PDEs. In the context of geometric PDEs, we consider phase-field approximations of mean curvature flow and Willmore flow problems and numerically study the convergence behavior of isogeometric analysis for these problems. As a model problem for high-order PDEs on stationary surfaces, we consider the Cahn-Hilliard equation on a sphere, where the surface is modeled using a phase-field approach. As for the high-order PDEs on evolving surfaces, a phase-field model of a deforming multi-component vesicle, which consists of two fourth-order nonlinear PDEs, is solved using the isogeometric analysis in a primal variational framework. Through several numerical examples in 2D, 3D and axisymmetric 3D settings, we show the robustness of IGA for solving the considered phase-field models. Finally, we present a monolithic, implicit formulation based on isogeometric analysis and generalized-alpha time integration for simulating hydrodynamics of vesicles according to a phase-field model. Compared to earlier works, the number of equations of the phase-field model which need to be solved is reduced by leveraging high continuity of NURBS functions, and the algorithm is extended to 3D settings. We use residual-based variational multi-scale method (RBVMS) for solving Navier-Stokes equations, while the rest of PDEs in the phase-field model are treated using a standard Galerkin-based IGA. We introduce the resistive immersed surface (RIS) method into the formulation which can be employed for an implicit description of complex geometries using a diffuse-interface approach. The implementation highlights the robustness of the RBVMS method for Navier-Stokes equations of incompressible flows with non-trivial localized forcing terms including bending and tension forces of the vesicle. The potential of the phase-field model and isogeometric analysis for accurate simulation of a variety of fluid-vesicle interaction problems in 2D and 3D is demonstrated.},
  subject      = {Phasenfeldmodell},
  language  = {en}
}