Unification-based constraints for statistical machine translation

Morphology and syntax have both received attention in statistical machine translation research, but they are usually treated independently and the historical emphasis on translation into English has meant that many morphosyntactic issues remain under-researched. Languages with richer morphologies pose additional problems and conventional approaches tend to perform poorly when either source or target language has rich morphology. In both computational and theoretical linguistics, feature structures together with the associated operation of unification have proven a powerful tool for modelling many morphosyntactic aspects of natural language. In this thesis, we propose a framework that extends a state-of-the-art syntax-based model with a feature structure lexicon and unification-based constraints on the target-side of the synchronous grammar. Whilst our framework is language-independent, we focus on problems in the translation of English to German, a language pair that has a high degree of syntactic reordering and rich target-side morphology. We first apply our approach to modelling agreement and case government phenomena. We use the lexicon to link surface form words with grammatical feature values, such as case, gender, and number, and we use constraints to enforce feature value identity for the words in agreement and government relations. We demonstrate improvements in translation quality of up to 0.5 BLEU over a strong baseline model. We then examine verbal complex production, another aspect of translation that requires the coordination of linguistic features over multiple words, often with long-range discontinuities. We develop a feature structure representation of verbal complex types, using constraint failure as an indicator of translation error and use this to automatically identify and quantify errors that occur in our baseline system. A manual analysis and classification of errors informs an extended version of the model that incorporates information derived from a parse of the source. We identify clause spans and use model features to encourage the generation of complete verbal complex types. We are able to improve accuracy as measured using precision and recall against values extracted from the reference test sets. Our framework allows for the incorporation of rich linguistic information and we present sketches of further applications that could be explored in future work

Differential evolution of non-coding DNA across eukaryotes and its close relationship with complex multicellularity on Earth

Here, I elaborate on the hypothesis that complex multicellularity (CM, sensu Knoll) is a major evolutionary transition (sensu Szathmary), which has convergently evolved a few times in Eukarya only: within red and brown algae, plants, animals, and fungi. Paradoxically, CM seems to correlate with the expansion of non-coding DNA (ncDNA) in the genome rather than with genome size or the total number of genes. Thus, I investigated the correlation between genome and organismal complexities across 461 eukaryotes under a phylogenetically controlled framework. To that end, I introduce the first formal definitions and criteria to distinguish ‘unicellularity’, ‘simple’ (SM) and ‘complex’ multicellularity. Rather than using the limited available estimations of unique cell types, the 461 species were classified according to our criteria by reviewing their life cycle and body plan development from literature. Then, I investigated the evolutionary association between genome size and 35 genome-wide features (introns and exons from protein-coding genes, repeats and intergenic regions) describing the coding and ncDNA complexities of the 461 genomes. To that end, I developed ‘GenomeContent’, a program that systematically retrieves massive multidimensional datasets from gene annotations and calculates over 100 genome-wide statistics. R-scripts coupled to parallel computing were created to calculate >260,000 phylogenetic controlled pairwise correlations. As previously reported, both repetitive and non-repetitive DNA are found to be scaling strongly and positively with genome size across most eukaryotic lineages. Contrasting previous studies, I demonstrate that changes in the length and repeat composition of introns are only weakly or moderately associated with changes in genome size at the global phylogenetic scale, while changes in intron abundance (within and across genes) are either not or only very weakly associated with changes in genome size. Our evolutionary correlations are robust to: different phylogenetic regression methods, uncertainties in the tree of eukaryotes, variations in genome size estimates, and randomly reduced datasets. Then, I investigated the correlation between the 35 genome-wide features and the cellular complexity of the 461 eukaryotes with phylogenetic Principal Component Analyses. Our results endorse a genetic distinction between SM and CM in Archaeplastida and Metazoa, but not so clearly in Fungi. Remarkably, complex multicellular organisms and their closest ancestral relatives are characterized by high intron-richness, regardless of genome size. Finally, I argue why and how a vast expansion of non-coding RNA (ncRNA) regulators rather than of novel protein regulators can promote the emergence of CM in Eukarya. As a proof of concept, I co-developed a novel ‘ceRNA-motif pipeline’ for the prediction of “competing endogenous” ncRNAs (ceRNAs) that regulate microRNAs in plants. We identified three candidate ceRNAs motifs: MIM166, MIM171 and MIM159/319, which were found to be conserved across land plants and be potentially involved in diverse developmental processes and stress responses. Collectively, the findings of this dissertation support our hypothesis that CM on Earth is a major evolutionary transition promoted by the expansion of two major ncDNA classes, introns and regulatory ncRNAs, which might have boosted the irreversible commitment of cell types in certain lineages by canalizing the timing and kinetics of the eukaryotic transcriptome.:Cover page Abstract Acknowledgements Index 1. The structure of this thesis 1.1. Structure of this PhD dissertation 1.2. Publications of this PhD dissertation 1.3. Computational infrastructure and resources 1.4. Disclosure of financial support and information use 1.5. Acknowledgements 1.6. Author contributions and use of impersonal and personal pronouns 2. Biological background 2.1. The complexity of the eukaryotic genome 2.2. The problem of counting and defining “genes” in eukaryotes 2.3. The “function” concept for genes and “dark matter” 2.4. Increases of organismal complexity on Earth through multicellularity 2.5. Multicellularity is a “fitness transition” in individuality 2.6. The complexity of cell differentiation in multicellularity 3. Technical background 3.1. The Phylogenetic Comparative Method (PCM) 3.2. RNA secondary structure prediction 3.3. Some standards for genome and gene annotation 4. What is in a eukaryotic genome? GenomeContent provides a good answer 4.1. Background 4.2. Motivation: an interoperable tool for data retrieval of gene annotations 4.3. Methods 4.4. Results 4.5. Discussion 5. The evolutionary correlation between genome size and ncDNA 5.1. Background 5.2. Motivation: estimating the relationship between genome size and ncDNA 5.3. Methods 5.4. Results 5.5. Discussion 6. The relationship between non-coding DNA and Complex Multicellularity 6.1. Background 6.2. Motivation: How to define and measure complex multicellularity across eukaryotes? 6.3. Methods 6.4. Results 6.5. Discussion 7. The ceRNA motif pipeline: regulation of microRNAs by target mimics 7.1. Background 7.2. A revisited protocol for the computational analysis of Target Mimics 7.3. Motivation: a novel pipeline for ceRNA motif discovery 7.4. Methods 7.5. Results 7.6. Discussion 8. Conclusions and outlook 8.1. Contributions and lessons for the bioinformatics of large-scale comparative analyses 8.2. Intron features are evolutionarily decoupled among themselves and from genome size throughout Eukarya 8.3. “Complex multicellularity” is a major evolutionary transition 8.4. Role of RNA throughout the evolution of life and complex multicellularity on Earth 9. Supplementary Data Bibliography Curriculum Scientiae Selbständigkeitserklärung (declaration of authorship

Proceedings der 11. Internationalen Tagung Wirtschaftsinformatik (WI2013) - Band 1

The two volumes represent the proceedings of the 11th International Conference on Wirtschaftsinformatik WI2013 (Business Information Systems). They include 118 papers from ten research tracks, a general track and the Student Consortium. The selection of all submissions was subject to a double blind procedure with three reviews for each paper and an overall acceptance rate of 25 percent. The WI2013 was organized at the University of Leipzig between February 27th and March 1st, 2013 and followed the main themes Innovation, Integration and Individualization.:Track 1: Individualization and Consumerization Track 2: Integrated Systems in Manufacturing Industries Track 3: Integrated Systems in Service Industries Track 4: Innovations and Business Models Track 5: Information and Knowledge ManagementDie zweibändigen Tagungsbände zur 11. Internationalen Tagung Wirtschaftsinformatik (WI2013) enthalten 118 Forschungsbeiträge aus zehn thematischen Tracks der Wirtschaftsinformatik, einem General Track sowie einem Student Consortium. Die Selektion der Artikel erfolgte nach einem Double-Blind-Verfahren mit jeweils drei Gutachten und führte zu einer Annahmequote von 25%. Die WI2013 hat vom 27.02. - 01.03.2013 unter den Leitthemen Innovation, Integration und Individualisierung an der Universität Leipzig stattgefunden.:Track 1: Individualization and Consumerization Track 2: Integrated Systems in Manufacturing Industries Track 3: Integrated Systems in Service Industries Track 4: Innovations and Business Models Track 5: Information and Knowledge Managemen

“The Bard meets the Doctor” – Computergestützte Identifikation intertextueller Shakespearebezüge in der Science Fiction-Serie Dr. Who.

A single abstract from the DHd-2019 Book of Abstracts.Sofern eine editorische Arbeit an dieser Publikation stattgefunden hat, dann bestand diese aus der Eliminierung von Bindestrichen in Überschriften, die aufgrund fehlerhafter Silbentrennung entstanden sind, der Vereinheitlichung von Namen der Autor*innen in das Schema "Nachname, Vorname" und/oder der Trennung von Überschrift und Unterüberschrift durch die Setzung eines Punktes, sofern notwendig

Framing Threat, Mobilizing Violence. Micro-Mechanisms of Conflict Escalation in Yemen

Why do some opposition movements escalate into armed conflict while others perdure non-violently under very similar conditions? In order to account for this variance, the dissertation proposes to transcend the limitations of existing structural theories within civil war studies by including the ‘framing approach’ as developed in social movement studies. Focusing on the cognitive level, this approach accentuates and elucidates the agency component and the interactive dynamics of the construction and negotiation of meaning which remain a ‘black box’ in current models. Shared meaning, which is constructed by collective action frames (i.e. schemata of interpretation) ̵̶ so the core argument ̵̶ mediates between structural conditions and collective action. These frames are developed, communicated, and contested by leaders, and fulfil a diagnostic, a prognostic, and a motivational function: They define a problem, suggest a pathway towards a solution (i.e. violent or non-violent), and mobilize followers. Depending on their content and their successful resonance among movement adherents, corresponding strategies are taken up. Within a most-similar case design, the dissertation analyzes two political movements in contemporary Yemen: The so-called ‘Houthis’ in the North of the country, who led a rebellion between 2004 and 2015, and the ‘Hirak’ movement in Southern Yemen, which since 2006 has been pursuing a strategy of non-violence in its struggle for independence. Embedded in an in-depth contextualization of the respective movements’ origins and the general conditions, the dissertation identifies and describes the respective collective action frames, establishes why and how strategic movement actors constructed them in their specific particularity, and relates this to the question of why constituents take certain forms of action. The findings assert the theoretical contribution of an integrative approach: It could be established how under conditions which would have allowed for armed conflict in both cases, distinct collective action frames led to the observed differences in behavior between the two movements. Solely on the basis of established structural approaches of civil war studies, this variation would have remained obscure. The inclusion of a framing perspective into a model of conflict escalation therefore proves rewarding. The Digital Appendix can be requested from the author