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The capabilities of a new approach towards the foundations of Statistical Mechanics are explored. The approach is genuine quantum in the sense that statistical behavior is a consequence of objective quantum uncertainties due to entanglement and uncertainty relations. No additional randomness is added by hand and no assumptions about a priori probabilities are made, instead measure concentration results are used to justify the methods of Statistical Physics. The approach explains the applicability of the microcanonical and canonical ensemble and the tendency to equilibrate in a natural way. This work contains a pedagogical review of the existing literature and some new results. The most important of which are: i) A measure theoretic justification for the microcanonical ensemble. ii) Bounds on the subsystem equilibration time. iii) A proof that a generic weak interaction causes decoherence in the energy eigenbasis. iv) A proof of a quantum H-Theorem. v) New estimates of the average effective dimension for initial product states and states from the mean energy ensemble. vi) A proof that time and ensemble averages of observables are typically close to each other. vii) A bound on the fluctuations of the purity of a system coupled to a bath.
Point-spread function engineering for single-molecule localization microscopy in brain slices
(2022)
Single-molecule localization microscopy (SMLM) is the method of choice to study biological specimens on a nanoscale level. Advantages of SMLM imply its superior specificity due to targeted molecular fluorescence labeling and its enhanced tissue preservation compared to electron microscopy, while reaching similar resolution. To reveal the molecular organization of protein structures in brain tissue, SMLM moves to the forefront: Instead of investigating brain slices with a thickness of a few µm, measurements of intact neuronal assemblies (up to 100 µm in each dimension) are required. As proteins are distributed in the whole brain volume and can move along synapses in all directions, this method is promising in revealing arrangements of neuronal protein markers. However, diffraction-limited imaging still required for the localization of the fluorophores is prevented by sample-induced distortion of emission pattern due to optical aberrations in tissue slices from non-superficial planes. In particular, the sample causes wavefront dephasing, which can be described as a summation of Zernike polynomials. To recover an optimal point spread function (PSF), active shaping can be performed by the use of adaptive optics. The aim of this thesis is to establish a setup using a deformable mirror and a wavefront sensor to actively shape the PSF to correct the wavefront phases in a super-resolution microscope setup. Therefore, fluorescence-labeled proteins expressed in different anatomical regions in brain tissue will be used as experiment specimen. Resolution independent imaging depth in slices reaching tens of micrometers is aimed.
According to the “canonical” paradigm of GPCR signaling, agonist-bound GPCRs only signal to the downstream adenylyl cyclase enzyme when they are seated at the plasma membrane. Upon prolonged binding of an agonist, receptor internalization usually takes place, leading to the termination of this downstream signaling pathway and activation of alternative ones. However, a set of recent studies have shown that at least some GPCRs (e.g. thyroid stimulating hormone receptor) continue signaling to adenylyl cyclase after internalization. In this study, I aimed to investigate canonical signaling by internalized μ opioid receptors (MORs), which are Gi-coupled receptors, using a fluorescence resonance energy transfer (FRET) sensor for cyclic AMP (cAMP) known as Epac1-camps. My results show that the cyclic AMP inhibition signal induced by the binding of DAMGO, a MOR agonist, persists after agonist washout. We hypothesized that this persistent signal might come from internalized DAMGO-bound receptors located in the endosomal compartment. To test this hypothesis, I used dynasore and Dyngo 4a, two dynamin inhibitors that are known to prevent clathrin-mediated endocytosis. Interestingly, dynasore but not Dyngo 4a pretreatment largely blunted the response to MOR activation as well as to adenylyl cyclase activation with Forskolin (FSK). In addition, DAMGO-induced cAMP signal remained persistent even in the presence of 30 M Dyngo 4a. These results might point to a complex interplay between clathrin-mediated internalization and MOR signaling. Further experiments are required to elucidate the mechanisms underlying the persistent MOR signaling and to fully clarify whether MORs are capable of Gi signaling in the endosomal compartment.
Increasing urbanisation is one of the biggest pressures to vegetation in the City of Cape Town. The growth of the city dramatically reduced the area under indigenous Fynbos vegetation, which remains in isolated fragments. These are subject to a number of threats including atmospheric deposition, atypical fire cycles and invasion by exotic plant and animal species. Especially the Port Jackson willow (Acacia saligna) extensively suppresses the indigenous Fynbos vegetation with its rapid growth.
The main objective of this study was to investigate indicators for a quick and early prediction of the health of the remaining Fynbos fragments in the City of Cape Town with help of remote sensing.
First, the productivity of the vegetation in response to rainfall was determined. For this purpose, the Enhanced Vegetation Index (EVI), derived from Terra MODIS data with a spatial resolution of 250m, and precipitation data of 19 rainfall stations for the period from 2000 till 2008 were used. Within the scope of a flexible regression between the EVI data and the precipitation data, different lags of the vegetation response to rainfall were analysed. Furthermore, residual trends (RESTREND) were calculated, which result from the difference between observed EVI and the one predicted by precipitation. Negative trends may suggest a degradation of the habitats. In addition, the so-called Rain-use Efficiency (RUE) was tested in this context. It is defined as the ratio between net primary production (NPP) – represented by the annual sum of EVI – and the annual rainfall sum. These indicators were analysed for their suitability to determine the health of the indigenous Fynbos vegetation.
Furthermore, the degree of dispersal of invasive species especially the Acacia saligna was investigated. With the specific characteristics of the tested indicators and the spectral signature of Acacia saligna, i.e. its unique reflectance over the course of the year, the dispersal was estimated. Since the growth of invasive species dramatically reduces the biodiversity of the fragments, their presence is an important factor for the condition of ecosystem health.
This work focused on 11 test sites with an average size of 200ha, distributed over the whole area of the City of Cape Town. Five of these fragments are under conservation and the others shall be protected in the near future, too, which makes them of special interest. In January 2010, fieldwork was undertaken in order to investigate the state and composition of the local vegetation.
The results show promising indicators for the assessment of ecosystem health. The coefficients of determination of the EVI-rainfall regression for Fynbos are minor, because the reaction of this vegetation type to rainfall is considerably lower than the one of the invasive species. Thus, a good distinction between indigenous and alien vegetation is possible on the basis of this regression. On the other hand, the RESTREND method, for which the regression forms the basis, is only of limited use, since the significance of these trends is not given for Fynbos vegetation. Furthermore, the RUE has considerable potential for the assessment of ecosystem health in the study area. The Port Jackson willow has an explicitly higher EVI than the Fynbos vegetation and thus its RUE is more efficient for a similar amount of rainfall. However, it has to be used with caution, because local and temporal variability cannot be extinguished in the study area over the rather short MODIS time series.
These results display that the interpretation of the indicators has to be conducted differently from the literature, because the element of invasive species was not considered in most of the previous papers. An increase in productivity is not necessarily equivalent with an improvement in health of the fragment, but can indicate a dispersal of Acacia saligna. This shows the general problem of the term ‘degradation’ which in most publications so far is only measured by productivity and other factors like invasive species are disregarded.
On the basis of the EVI-rainfall regression and statistical measures of the EVI, the distribution of invasive species could be delineated. Generally, a strong invasion of the Port Jackson willow was discovered on the test sites. The results display that a reasoned and sustainable management of the fragments is essential in order to prevent the suppression of the indigenous Fynbos vegetation by Acacia saligna. For this purpose, remote sensing can give an indication which areas changed so that specific field surveys can be undertaken and subsequent management measures can be determined.
Burn severity was measured within the Mediterranean sclerophyll forests of south-west Western Australia (WA) using remote sensing data from the Moderate Resolution Imaging Spectroradiometer (MODIS). The region of south-west WA is considered as a high fire prone landscape and is managed by the state government’s Department of Conservation and Land Management (CALM). Prescribed fuel reduction burning is used as a management tool in this region. The measurement of burn severity with remote sensing data focused on monitoring the success and impact of prescribed burning and wildfire in this environment. The high temporal resolution of MODIS with twice daily overpasses in this area was considered highly favourable, as opportunities for prescribed burning are temporally limited by climatic conditions. The Normalised Burn Ratio (NBR) was investigated to measure burn severity in the forested area of south-west WA. This index has its heritage based on data from the Landsat TM/ETM+ sensors (Key and Benson, 1999 [1],[2]) and was transferred from Landsat to MODIS data. The measurement principally addresses the biomass consumption due to fire, whereas the change detected between the pre-fire image and the post-fire image is quantified by the ÄNBR. The NBR and the Normalised Difference Vegetation Index (NDVI) have been applied to MODIS and Landsat TM/ETM+ data. The spectral properties and the index values of the remote sensing data have been analysed within different burnt areas. The influence of atmospheric and BRDF effects on MODIS data has been investigated by comparing uncorrected top of atmosphere reflectance and atmospheric and BRDF corrected reflectance. The definition of burn severity classes has been established in a field trip to the study area. However, heterogeneous fire behaviour and patchy distribution of different vegetation structure made field classification difficult. Ground truth data has been collected in two different types of vegetation structure present in the burnt area. The burn severity measurement of high resolution Landsat data was assessed based on ground truth data. However, field data was not sufficient for rigorous validation of remote sensing data. The NBR index images of both sensors have been calibrated based on training areas in the high resolution Landsat image. The burn severity classifications of both sensors are comparable, which demonstrates the feasibility of a burn severity measurement using moderate spatial resolution 250m MODIS data. The normalisation through index calculation reduced atmospheric and BRDF effects, and thus MODIS top of at-mosphere data has been considered suitable for the burn severity measurement. The NBR could not be uniformly applied, as different structures of vegetation influenced the range of index values. Furthermore, the index was sensitive to variability in moisture content. However, the study concluded that the NBR on MODIS data is a useful measure of burn severity in the forested area of south-west WA.
This thesis gives an overview over mathematical modeling of complex fluids with the discussion of underlying mechanical principles, the introduction of the energetic variational framework, and examples and applications. The purpose is to present a formal energetic variational treatment of energies corresponding to the models of physical phenomena and to derive PDEs for the complex fluid systems. The advantages of this approach over force-based modeling are, e.g., that for complex systems energy terms can be established in a relatively easy way, that force components within a system are not counted twice, and that this approach can naturally combine effects on different scales. We follow a lecture of Professor Dr. Chun Liu from Penn State University, USA, on complex fluids which he gave at the University of Wuerzburg during his Giovanni Prodi professorship in summer 2012. We elaborate on this lecture and consider also parts of his work and publications, and substantially extend the lecture by own calculations and arguments (for papers including an overview over the energetic variational treatment see [HKL10], [Liu11] and references therein).
Participants trained aiming movements of the right hand to several targets with a prism-like virtual displacement of the location of one of the targets, receiving either terminal or continuous visual feedback. After training, the same targets were to be reached with the untrained left hand under manipulated feedback conditions. The right hand movements continuously adapted to the unnoticed visual displacement, significantly less with continuous than with terminal feedback. Under terminal but not under continuous feedback the adaptation to the manipulated target generalized to targets in the same horizontal direction but not to targets in the opposite direction. Finally, the movements of the untrained left hand showed the same qualitative changes to the targets as the movements of the trained right hand. The data are in line with the notion that the adaptation of the right hand movements is mainly based on a re-interpretation of target locations on which movement control of both hands draws.
The scope of this work is to develop a novel single-molecule imaging technique by combining atomic force microscopy (AFM) and optical fluorescence microscopy. The technique is used for characterizing the structural properties of multi-protein complexes. The high-resolution fluorescence microscopy and AFM are combined (FIONA-AFM) to allow for the identification of individual proteins in such complexes. This is achieved by labeling single proteins with fluorescent dyes and determining the positions of these fluorophores with high precision in an optical image. The same area of the sample is subsequently scanned by AFM. Finally, the two images are aligned and the positions of the fluorophores are displayed on top of the topographical data. Using quantum dots as fiducial markers in addition to fluorescently labeled proteins, fluorescence and AFM information can be aligned with an accuracy better than 10 nm, which is sufficient to identify single fluorescently labeled proteins in most multi-protein complexes. The limitations of localization precision and accuracy in fluorescence and AFM images are investigated, including their effects on the overall registration accuracy of FIONA-AFM hybrid images. This combination of the two complementary techniques opens a wide spectrum of possible applications to the study of protein interactions, because AFM can yield high resolution (5–10 nm) information about the conformational properties of multi-protein complexes while the fluorescence can indicate spatial relationships of the proteins within the complexes. Additionally, computer simulations are performed in order to validate the accuracy of the registration algorithm.
Streaming of videos has become the major traffic generator in today's Internet and the video traffic share is still increasing. According to Cisco's annual Visual Networking Index report, in 2012, 60% of the global Internet IP traffic was generated by video streaming services. Furthermore, the study predicts further increase to 73% by 2017. At the same time, advances in the fields of mobile communications and embedded devices lead to a widespread adoption of Internet video enabled mobile and wireless devices (e.g. Smartphones). The report predicts that by 2017, the traffic originating from mobile and wireless devices will exceed the traffic from wired devices and states that mobile video traffic was the source of roughly half of the mobile IP traffic at the end of 2012.
With the increasing importance of Internet video streaming in today's world, video content provider find themselves in a highly competitive market where user expectations are high and customer loyalty depends strongly on the user's satisfaction with the provided service. In particular paying customers expect their viewing experience to be the same across all their viewing devices and independently of their currently utilized Internet access technology. However, providing video streaming services is costly in terms of storage space, required bandwidth and generated traffic. Therefore, content providers face a trade-off between the user perceived Quality of Experience (QoE) and the costs for providing the service.
Today, a variety of transport and application protocols exist for providing video streaming services, but the one utilized depends on the scenario in mind. Video streaming services can be divided up in three categories: Video conferencing, IPTV and Video-on-Demand services. IPTV and video-conferencing have severe real-time constraints and thus utilize mostly datagram-based protocols like the RTP/UDP protocol for the video transmission. Video-on-Demand services in contrast can profit from pre-encoded content, buffers at the end user's device, and mostly utilize TCP-based protocols in combination with progressive streaming for the media delivery.
In recent years, the HTTP protocol on top of the TCP protocol gained widespread popularity as a cost-efficient way to distribute pre-encoded video content to customers via progressive streaming. This is due to the fact that HTTP-based video streaming profits from a well-established infrastructure which was originally implemented to efficiently satisfy the increasing demand for web browsing and file downloads. Large Content Delivery Networks (CDN) are the key components of that distribution infrastructure. CDNs prevent expensive long-haul data traffic and delays by distributing HTTP content to world-wide locations close to the customers. As of 2012, already 53% of the global video traffic in the Internet originates from Content Delivery Networks and that percentage is expected to increase to 65% by the year 2017. Furthermore, HTTP media streaming profits from existing HTTP caching infrastructure, ease of NAT and proxy traversal and firewall friendliness.
Video delivery through heterogeneous wired and wireless communications networks is prone to distortions due to insufficient network resources. This is especially true in wireless scenarios, where user mobility and insufficient signal strength can result in a very poor transport service performance (e.g. high packet loss, delays and low and varying bandwidth). A poor performance of the transport in turn may degrade the Quality of Experience as perceived by the user, either due to buffer underruns (i.e. playback interruptions) for TCP-based delivery or image distortions for datagram-based real-time video delivery.
In order to overcome QoE degradations due to insufficient network resources, content provider have to consider adaptive video streaming. One possibility to implement this for HTTP/TCP streaming is by partitioning the content into small segments, encode the segments into different quality levels and provide access to the segments and the quality level details (e.g. resolution, average bitrate). During the streaming session, a client-centric adaptation algorithm can use the supplied details to adapt the playback to the current environment. However, a lack of a common HTTP adaptive streaming standard led to multiple proprietary solutions developed by major Internet companies like Microsoft (Smooth Streaming), Apple (HTTP Live Streaming) and Adobe (HTTP Dynamic Streaming) loosely based on the aforementioned principle. In 2012, the ISO/IEC published the Dynamic Adaptive Streaming over HTTP (MPEG-DASH) standard. As of today, DASH is becoming widely accepted with major companies announcing their support or having already implemented the standard into their products. MPEG-DASH is typically used with single layer codecs like H.264/AVC, but recent publications show that scalable video coding can use the existing HTTP infrastructure more efficiently. Furthermore, the layered approach of scalable video coding extends the adaptation options for the client, since already downloaded segments can be enhanced at a later time.
The influence of distortions on the perceived QoE for non-adaptive video streaming are well reviewed and published. For HTTP streaming, the QoE of the user is influenced by the initial delay (i.e. the time the client pre-buffers video data) and the length and frequency of playback interruptions due to a depleted video playback buffer. Studies highlight that even low stalling times and frequencies have a negative impact on the QoE of the user and should therefore be avoided. The first contribution of this thesis is the identification of QoE influence factors of adaptive video streaming by the means of crowd-sourcing and a laboratory study.
MPEG-DASH does not specify how to adapt the playback to the available bandwidth and therefore the design of a download/adaptation algorithm is left to the developer of the client logic. The second contribution of this thesis is the design of a novel user-centric adaption logic for DASH with SVC. Other download algorithms for segmented HTTP streaming with single layer and scalable video coding have been published lately. However, there is little information about the behavior of these algorithms regarding the identified QoE-influence factors. The third contribution is a user-centric performance evaluation of three existing adaptation algorithms and a comparison to the proposed algorithm. In the performance evaluation we also evaluate the fairness of the algorithms. In one fairness scenario, two clients deploy the same adaptation algorithm and share one Internet connection. For a fair adaptation algorithm, we expect the behavior of the two clients to be identical. In a second fairness scenario, one client shares the Internet connection with a large HTTP file download and we expect an even bandwidth distribution between the video streaming and the file download. The forth contribution of this thesis is an evaluation of the behavior of the algorithms in a two-client and HTTP cross traffic scenario.
The remainder of this thesis is structured as follows. Chapter II gives a brief introduction to video coding with H.264, the HTTP adaptive streaming standard MPEG-DASH, the investigated adaptation algorithms and metrics of Quality of Experience (QoE) for video streaming. Chapter III presents the methodology and results of the subjective studies conducted in the course of this thesis to identify the QoE influence factors of adaptive video streaming. In Chapter IV, we introduce the proposed adaptation algorithm and the methodology of the performance evaluation. Chapter V highlights the results of the performance evaluation and compares the investigated adaptation algorithms. Section VI summarizes the main findings and gives an outlook towards QoE-centric management of DASH with SVC.
This project explores Tan Yunxian's journey of becoming a female doctor in the Ming dynasty. Among all the surviving Ming medical books, Tan Yunxian's medical case book is the only one that was written by a woman. It seems natural, considering she had both scholar-official and medical family backgrounds. Yet, social expectations consider it more suitable for a lady to remain in the household, and not treat patients outside. To legitimize Tan Yunxian's pursuit of a medical career, she applied several strategies to resolve potential criticism toward her and her family. These strategies are analyzed through her autobiographical preface in her medical case book. The project also explores Ming male literatis' perspectives toward Tan Yunxian, the factors that contributed to the preservation and publication of her medical case book, and examined her medical cases under the social-historical and micro-history contexts.