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Upgrade of Bioreactor System Providing Physiological Stimuli
to Engineered Musculoskeletal Tissues
(2017)
A novel central control interface (CCI) is developed to improve the modular bioreactor system with regard to extendability and modifiability in Tissue Engineering (TE) applications. This paper presents the results developed in the project with open-source hardware and the graphical programming system LabVIEW. A new platform independent User Interface was further developed to contribute to the new flexibility of the device.
CIP is an open-source high-level function library for (non-linear) curve fitting and data smoothing (with cubic splines), clustering (k-medoids, ART-2a) and machine learning (multiple linear/polynomial regression, feed-forward perceptron-type shallow and deep neural networks and support vector machines). In addition it provides several heuristics for the selection of training and test data or methods to estimate the relevance of data input components. CIP is built on top of the computing platform Mathematica to exploit its algorithmic and graphical capabilities.
CIP is an open-source high-level function library for (non-linear) curve fitting and data smoothing (with cubic splines), clustering (k-medoids, ART-2a) and machine learning (multiple linear/polynomial regression, feed-forward perceptron-type shallow and deep neural networks and support vector machines). In addition it provides several heuristics for the selection of training and test data or methods to estimate the relevance of data input components. CIP is built on top of the computing platform Mathematica to exploit its algorithmic and graphical capabilities.
Jdpd is an open Java simulation kernel for Molecular Fragment Dissipative Particle Dynamics with parallelizable force calculation, efficient caching options and fast property calculations. It is characterized by an interface and factory-pattern driven design for simple code changes and may help to avoid problems of polyglot programming. Detailed input/output communication, parallelization and process control as well as internal logging capabilities for debugging purposes are supported. The new kernel may be utilized in different simulation environments ranging from flexible scripting solutions up to fully integrated “all-in-one” simulation systems.
SPICES (Simplified Particle Input ConnEction Specification) is a particle-based molecular structure representation derived from straightforward simplifications of the atom-based SMILES line notation. It aims at supporting tedious and error-prone molecular structure definitions for particle-based mesoscopic simulation techniques like Dissipative Particle Dynamics by allowing for an interplay of different molecular encoding levels that range from topological line notations and corresponding particle-graph visualizations to 3D structures with support of their spatial mapping into a simulation box. An open Java library for SPICES structure handling and mesoscopic simulation support in combination with an open Java Graphical User Interface viewer application for visual topological inspection of SPICES definitions are provided.
Metallic implants in magnetic resonance imaging (MRI) are a potential safety risk since the energy absorption may increase temperature of the surrounding tissue. The temperature rise is highly dependent on implant size. Numerical examinations can be used to calculate the energy absorption in terms of the specific absorption rate (SAR) induced by MRI on orthopaedic implants. This research presents the impact of titanium osteosynthesis spine implants, called spondylodesis, deduced by numerical examinations of energy absorption in simplified spondylodesis models placed in 1.5 T and 3.0 T MRI body coils. The implants are modelled along with a spine model consisting of vertebrae and disci intervertebrales thus extending previous investigations [1], [2]. Increased SAR values are observed at the ends of long implants, while at the center SAR is significantly lower. Sufficiently short implants show increased SAR along the complete length of the implant. A careful data analysis reveals that the particular anatomy, i.e. vertebrae and disci intervertebrales, has a significant effect on SAR. On top of SAR profile due to the implant length, considerable SAR variations at small scale are observed, e.g. SAR values at vertebra are higher than at disc positions.
A simplified model for spondylodesis, ie fixation of vertebrae by osteosynthesis, is developed for virtual magnetic resonance imaging (MRI) examinations to numerically calculate energy absorption. This paper presents results of calculated energy absorption in body tissue surrounding titanium rod implants. In general each wire or rod behaves like an antenna in electromagnetic fields. The specific absorption rate (SAR) profile describes dependence of implant size. SAR hotspots appear near the rod edges. Depending of the size of implant fixation SAR is 62%(small fixation) up to 90.95%(large fixation) higher than without implants. In addition, local SAR profile displays local dependency on tissue: SAR is lower between the vertebrae.
Cancer is a leading cause of morbidity and mortality worldwide, with approximately 14 million new cases and 8.2 million cancer related deaths in 2012 [1]. Moreover, the global cancer burden is expected to exceed 20 million new cancer cases by 2025. Understanding the spatial and temporal behaviour of cancer is a crucial precondition to achieve a successful treatment. Because no two cancer cases are the same, every patient should receive a treatment plan designed specifically for her case, in order to improve the patient’s survival chances.
Quantum systems are typically subject to various environmental noise sources. Treating these environmental disturbances with a system-bath approach beyond weak coupling, one must refer to numerical methods as, for example, the numerically exact quasi-adiabatic path integral approach. This approach, however, cannot treat baths which couple to the system via operators, which do not commute. We extend the quasi-adiabatic path integral approach by determining the time discrete influence functional for such non-commuting fluctuations and by modifying the propagation scheme accordingly. We test the extended quasi-adiabatic path integral approach by determining the time evolution of a quantum two-level system coupled to two independent baths via non-commuting operators. We show that the convergent results can be obtained and agreement with the analytical weak coupling results is achieved in the respective limits.
We derive a Magnus expansion for a frequency chirped quantum two-level system. We obtain a time-independent effective Hamiltonian which generates a stroboscopic time evolution. At lowest order the according dynamics is identical to results from using a rotating wave approximation. We determine, furthermore, also the next higher-order corrections within our expansion scheme in correspondence to the Bloch-Siegert shifts for harmonically driven systems. Importantly, our scheme can be extended to more complicated systems, i.e., even many-body systems.
Recent experimental results showing atypical nonlinear absorption and marked deviations from well known universality in the low temperature acoustic and dielectric losses in amorphous solids prove the need for improving the understanding of the nature of two-level systems (TLSs) in these materials. Here we suggest the study of TLSs focused on their properties which are nonuniversal. Our theoretical analysis shows that the standard tunneling model and the recently suggested two-TLS model provide markedly different predictions for the experimental outcome of these studies. Our results may be directly tested in disordered lattices, e.g KBr:CN, where there is ample theoretical support for the validity of the two-TLS model, as well as in amorphous solids. Verification of our results in the latter will significantly enhance understanding of the nature of TLSs in amorphous solids, and the ability to manipulate them and reduce their destructive effect in various cutting edge applications including superconducting qubits.