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Investigation of the TCA cycle and glycolytic metabolons and their physiological impacts in plants
(2016)
The horse is a fascinating animal symbolizing power, beauty, strength and grace. Among all the animal species domesticated the horse had the largest impact on the course of human history due to its importance for warfare and transportation. Studying the process of horse domestication contributes to the knowledge about the history of horses and even of our own species.
Research based on molecular methods has increasingly focused on the genetic basis of horse domestication. Mitochondrial DNA (mtDNA) analyses of modern and ancient horses detected immense maternal diversity, probably due to many mares that contributed to the domestic population. However, mtDNA does not provide an informative phylogeographic structure. In contrast, Y chromosome analyses displayed almost complete uniformity in modern stallions but relatively high diversity in a few ancient horses. Further molecular markers that seem to be well suited to infer the domestication history of horses or genetic and phenotypic changes during this process are loci associated with phenotypic traits.
This doctoral thesis consists of three different parts for which I analyzed various single nucleotide polymorphisms (SNPs) associated with coat color, locomotion or Y chromosomal variation of horses. These SNPs were genotyped in 350 ancient horses from the Chalcolithic (5,000 BC) to the Middle Ages (11th century). The distribution of the samples ranges from China to the Iberian Peninsula and Iceland. By applying multiplexed next-generation sequencing (NGS) I sequenced short amplicons covering the relevant positions: i) eight coat-color-associated mutations in six genes to deduce the coat color phenotype; ii) the so-called ’Gait-keeper’ SNP in the DMRT3 gene to screen for the ability to amble; iii) 16 SNPs previously detected in ancient horses to infer the corresponding haplotype. Based on these data I investigated the occurrence and frequencies of alleles underlying the respective phenotypes as well as Y chromosome haplotypes at different times and regions. Also, selection coefficients for several Y chromosome lineages or phenotypes were estimated.
Concerning coat color differences in ancient horses my work constitutes the most comprehensive study to date. I detected an increase of chestnut horses in the Middle Ages as well as differential selection for spotted and solid phenotypes over time which reflects changing human preferences.
With regard to ambling horses, the corresponding allele was present in medieval English and Icelandic horses. Based on these results I argue that Norse settlers, who frequently invaded parts of Britain, brought ambling individuals to Iceland from the British Isles which can be regarded the origin of this trait. Moreover, these settlers appear to have selected for ambling in Icelandic horses.
Relating to the third trait, the paternal diversity, these findings represent the largest ancient dataset of Y chromosome variation in non-humans. I proved the existence of several Y chromosome haplotypes in early domestic horses. The decline of Y chromosome variation coincides with the movement of nomadic peoples from the Eurasian steppes and later with different breeding practices in the Roman period.
In conclusion, positive selection was estimated for several phenotypes/lineages
in different regions or times which indicates that these were preferred by humans. Furthermore, I could successfully infer the distribution and dispersal of horses in association with human movements and actions. Thereby, a better understanding of the influence of people on the changing appearance and genetic diversity of domestic horses could be gained. My results also emphasize the close relationship of ancient genetics and archeology or history and that only in combination well-founded conclusions can be reached.
This book provides for an extensive legal analysis of the international drug control system in light of the growing challenges and criticism that this system faces. In the current debate on global drug policy, the central pillars of the international drug control system – the UN Drug Conventions as well as its institutions – are portrayed as outdated, suppressive and seen as an obstacle to necessary changes. The book’s objective is to provide an in-depth and positivist insight into drug control’s present legal framework and thus provide for a better understanding of the normative assumptions upon which drug control is currently based. This is attained by clarifying the objectives of the international drug control system and the premises by which these objectives are to be achieved.
The objective of the current global framework of international drug control is the limitation of drugs to medical and scientific purposes. The meaning of this objective and its concrete implications for States’ parties as well as its problems from the perspective of other regimes of international law, most notably international human rights law, are extensively analysed. Additionally, the book focuses on how the international drug control system attempts to reach the objective of confining drugs to medical and scientific purposes, i.e. by setting up a universal system that exercises a rigid control on drug supply. The consequences of this heavy focus on the reduction of drug supply are outlined, and the book concludes by making suggestions on how the international drug control system could be reformed in the near future in order to better meet the existing challenges.
The analysis occurs from a general international law perspective. It aims to map the international drug control system within a wider context of international law and to understand whether the problems that the international drug control system faces are exemplary for the difficulties that institutionalized systems of global scope face in the twenty-first century.
Porous Membranes from Imidazolium- and Pyridinium-based Poly(ionic liquid)s with Targeted Properties
(2016)
This study presents new insights into null subjects, topic drop and the interpretation of topic-dropped elements. Besides providing an empirical data survey, it offers explanations to well-known problems, e.g. syncretisms in the context of null-subject licensing or the marginality of dropping an element which carries oblique case. The book constitutes a valuable source for both empirically and theoretically interested (generative) linguists.
Ecosystems' exposure to climate change - Modeling as support for nature conservation management
(2016)
Implementation of a plasmodesmata gatekeeper system, and its effect on intercellular transport
(2016)
In this Thesis, the properties of aqueous hemicellulose polysaccharides are investigated using computer simulations. The high swelling capacity of materials composed of these molecules allows the generation of directed motion in plant materials entirely controlled by water uptake.
To explore the molecular origin of this swelling capacity, a computational model with atomistic resolution for hemicellulose polysaccharides is build and validated in comparison with experiments. Using this model, simulations of small polysaccharides are employed to gain an understanding of the interactions of these molecules with water, the influence of water on their conformational freedom, and the swelling capacity quantified in terms of osmotic pressure. It is revealed that the branched hemicellulose polysaccharides show different hydration characteristics compared to linear polysaccharides.
To study swelling properties on length and time scales that exceed the limitations imposed by atomistic simulations, a procedure to obtain transferable coarse-grain models is developed. The transferability of the coarse-grain models over both different degrees of polymerization as well as different solute concentrations is demonstrated. Therefore, the procedure allows the construction of large coarse-grained systems based on small atomistic reference systems. Finally, the coarse-grain model is applied to demonstrate that linear and branched polysaccharides show a different swelling behavior when coupled to a water bath.
Software-as-a-Service (SaaS) offers several advantages to both service providers and users. Service providers can benefit from the reduction of Total Cost of Ownership (TCO), better scalability, and better resource utilization. On the other hand, users can use the service anywhere and anytime, and minimize upfront investment by following the pay-as-you-go model. Despite the benefits of SaaS, users still have concerns about the security and privacy of their data. Due to the nature of SaaS and the Cloud in general, the data and the computation are beyond the users' control, and hence data security becomes a vital factor in this new paradigm. Furthermore, in multi-tenant SaaS applications, the tenants become more concerned about the confidentiality of their data since several tenants are co-located onto a shared infrastructure.
To address those concerns, we start protecting the data from the provisioning process by controlling how tenants are being placed in the infrastructure. We present a resource allocation algorithm designed to minimize the risk of co-resident tenants called SecPlace. It enables the SaaS provider to control the resource (i.e., database instance) allocation process while taking into account the security of tenants as a requirement.
Due to the design principles of the multi-tenancy model, tenants follow some degree of sharing on both application and infrastructure levels. Thus, strong security-isolation should be present. Therefore, we develop SignedQuery, a technique that prevents one tenant from accessing others' data. We use the Signing Concept to create a signature that is used to sign the tenant's request, then the server can verifies the signature and recognizes the requesting tenant, and hence ensures that the data to be accessed is belonging to the legitimate tenant.
Finally, Data confidentiality remains a critical concern due to the fact that data in the Cloud is out of users' premises, and hence beyond their control. Cryptography is increasingly proposed as a potential approach to address such a challenge. Therefore, we present SecureDB, a system designed to run SQL-based applications over an encrypted database. SecureDB captures the schema design and analyzes it to understand the internal structure of the data (i.e., relationships between the tables and their attributes). Moreover, we determine the appropriate partialhomomorphic encryption scheme for each attribute where computation is possible even when the data is encrypted.
To evaluate our work, we conduct extensive experiments with di↵erent settings. The main use case in our work is a popular open source HRM application, called OrangeHRM. The results show that our multi-layered approach is practical, provides enhanced security and isolation among tenants, and have a moderate complexity in terms of processing encrypted data.
Effects of plant community diversity and composition on fungal pathogens in experimental grasslands
(2016)
Buyer-seller negotiations have significant impact on a company’s profitability, which makes practitioners aim at maximizing their performance. One lever for increasing bargaining performance is to pursue a clearly defined aspiration, i.e. one’s most desired outcome. In this context, the author explores the role of such aspirations in the three negotiation phases: preparation, bargaining, and striking a deal. She investigates determinants of aspirations, unintended consequences such as unethical bargaining behavior, and the consequences of overly ambitious aspirations. As a result, she does not only close existing gaps in negotiation research, but also derives valuable implications for practitioners
Food and fear
(2016)
This volume is a novel approach to the corpus-based variationist sociolinguistic study of contemporary urban western Irish English. Based on qualitative data as well as on linguistic features extracted from the Corpus of Galway City Spoken English, this study approaches the major sociolinguistic characteristics of (th) and (dh) variability in Galway City English. It demonstrates the diverse local patterns of variability and change in the phonetic realisation of the dental fricatives and establishes a considerable degree of divergence from traditional accounts on Irish English. This volume suggests that the linguistic stratification of variants of (th) and (dh) in Galway correlates both with the social stratification of the city itself and with the stratification of speakers by social status, sex/gender and age group.
My thesis focused on the predictions of the activation-based model of Lewis and Vasishth (2005) to investigate the evidence for the use of the memory system in the formation of non-local dependencies in sentence comprehension.
The activation-based model, which follows the Adaptive Control of Thought-Rational framework (ACT-R; Anderson et al., 2004), has been used to explain locality effects and similarity-based interference by assuming that dependencies are resolved by a cue-based retrieval mechanism, and that the retrieval mechanism is affected by decay and interference.
Both locality effects and (inhibitory) similarity-based interference cause increased difficulty (e.g., longer reading times) at the site of the dependency completion where a retrieval is assumed: (I) Locality effects are attributed to the increased difficulty in the retrieval of a dependent when the distance from its retrieval site is increased. (II) Similarity-based interference is attributed to the retrieval being affected by the presence of items which have similar features as the dependent that needs to be retrieved.
In this dissertation, I investigated some findings problematic to the activation-based model, namely, facilitation where locality effects are expected (e.g., Levy, 2008), and the lack of similarity-based interference from the number feature in grammatical sentences (e.g., Wagers et al., 2009). In addition, I used individual differences in working memory capacity and reading fluency as a way to validate the theories investigated (Underwood, 1975), and computational modeling to achieve a more precise account of the phenomena.
Regarding locality effects, by using self-paced reading and eye-tracking-while reading methods with Spanish and German data, this dissertation yielded two main findings: (I) Locality effects seem to be modulated by working memory capacity, with high-capacity participants showing expectation-driven facilitation. (II) Once expectations and other potential confounds are controlled using baselines, with increased distance, high-capacity readers can show a slow-down (i.e., locality effects) and low-capacity readers can show a speedup. While the locality effects are compatible with the activation-based model, simulations show that the speedup of low-capacity readers can only be accounted for by changing some of the assumptions of the activation-based model.
Regarding similarity-based interference, two relatively high-powered self-paced reading experiments in German using grammatical sentences yielded a slowdown at the verb as predicted by the activation-based model. This provides evidence in favor of dependency creation via cue-based retrieval, and in contrast with the view that cue-based retrieval is a reanalysis mechanism (Wagers et al., 2009).
Finally, the same experimental results that showed inhibitory interference from the number feature are used for a finer grain evaluation of the retrieval process. Besides Lewis and Vasishth’s (2005) activation-based model, also McElree’s (2000) direct-access model can account for inhibitory interference. These two models assume a cue-based retrieval mechanism to build dependencies, but they are based on different assumptions. I present a computational evaluation of the predictions of these two theories of retrieval. The models were compared by implementing them in a Bayesian hierarchical framework. The evaluation of the models reveals that some aspects of the data fit better under the direct access model than under the activation-based model. However, a simple extension of the activation-based model provides a comparable fit to the direct access model. This serves as a proof of concept showing potential ways to improve the original activation-based model.
In conclusion, this thesis adds to the body of evidence that argues for the use of the general memory system in dependency resolution, and in particular for a cue-based retrieval mechanism. However, it also shows that some of the default assumptions inherited from ACT-R in the activation-based model need to be revised.
The introduction of columnar in-memory databases, along with hardware evolution, has made the execution of transactional and analytical enterprise application workloads on a single system both feasible and viable. Yet, we argue that executing analytical aggregate queries directly on the transactional data can decrease the overall system performance. Despite the aggregation capabilities of columnar in-memory databases, the direct access to records of a materialized aggregate is always more efficient than aggregating on the fly. The traditional approach to materialized aggregates, however, introduces significant overhead in terms of materialized view selection, maintenance, and exploitation. When this overhead is handled by the application, it increases the application complexity, and can slow down the transactional throughput of inserts, updates, and deletes.
In this thesis, we motivate, propose, and evaluate the aggregate cache, a materialized aggregate engine in the main-delta architecture of a columnar in-memory database that provides efficient means to handle costly aggregate queries of enterprise applications. For our design, we leverage the specifics of the main-delta architecture that separates a table into a main and delta partition. The central concept is to only cache the partial aggregate query result as defined on the main partition of a table, because the main partition is relatively stable as records are only inserted into the delta partition. We contribute by proposing incremental aggregate maintenance and query compensation techniques for mixed workloads of enterprise applications. In addition, we introduce aggregate profit metrics that increase the likelihood of persisting the most profitable aggregates in the aggregate cache.
Query compensation and maintenance of materialized aggregates based on joins of multiple tables is expensive due to the partitioned tables in the main-delta architecture. Our analysis of enterprise applications has revealed several data schema and workload patterns. This includes the observation that transactional data is persisted in header and item tables, whereas in many cases, the insertion of related header and item records is executed in a single database transaction. We contribute by proposing an approach to transport these application object semantics to the database system and optimize the query processing using the aggregate cache by applying partition pruning and predicate pushdown techniques.
For the experimental evaluation, we propose the FICO benchmark that is based on data from a productive ERP system with extracted mixed workloads. Our evaluation reveals that the aggregate cache can accelerate the execution of aggregate queries up to a factor of 60 whereas the speedup highly depends on the number of aggregated records in the main and delta partitions. In mixed workloads, the proposed aggregate maintenance and query compensation techniques perform up to an order of magnitude better than traditional materialized aggregate maintenance approaches. The introduced aggregate profit metrics outperform existing costbased metrics by up to 20%. Lastly, the join pruning and predicate pushdown techniques can accelerate query execution in the aggregate cache in the presence of multiple partitioned tables by up to an order of magnitude.