Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 18 of 18 for “"network biology"”.
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Genome-wide Predictive Simulation on the Effect of Perturbation and the Cause of Phenotypic variations with Network Biology Approach
… is a key goal of the nascent field of systems biology. One approach to dissect the logic of the cell, is to use reverse engineering algorithms that infer regulatory interactions form molecular profile data. In this context, use of information theoretic approaches has been very successful: for …
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Design and Evaluation of Network Algorithms and Deep Learning Models in Systems Biology and Biomedicine
… novel solutions to four interrelated problems in network biology and computational biomedicine. The first two address methodological challenges in network biology, while the latter two focus on applications of network-based computational modeling in therapeutics. (i) We introduce a provenance …
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Statistical Methods for Inferring Latent Factors in Biological Networks
… of complex interactions among multiple genes. Network biology has emerged as a powerful approach for investigating biological systems as networks, enabling researchers to model interactions between components in a comprehensive and systematic manner. A fundamental question in network biology is …
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Practical Approaches to Biological Network Discovery
… outstanding problem in the field of systems biology, which is to identify the structure of a transcriptional network from high-throughput experimental data. Understanding of the connectivity of a transcriptional network is an important piece of the puzzle, which relates the genotype of an …
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Revealing the Mechanisms of Tumorigenesis Through Multi-Omics Analyses
… (PCa). By integrating multi-omics profiling with network biology and machine learning algorithms, this work systematically maps the potential molecular mechanism driving malignancy in these cancers. For MCC, I identified that viral infection rewires key signaling circuits that force normal cells …
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Towards a comprehensive human protein-protein interaction network
… techniques and the progress in the field of network biology has provided us with tools to evaluate, analyze, and interpret the interactome. Although techniques are being scaled to tackle mammalian genomes, as witnessed by the first protein interaction networks for fly and worm we are far from …
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Understanding and targeting network-level sheddase regulation in invasive disease
… a challenge in the fields of both protease biology and systems biology in general. This work begins to address that challenge by quantitatively investigating the integrated effect of multiple diverse proteolytic events and their interaction with cell-signaling pathways from a computational …
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Gene Expression–Based Algorithms For The Identification of Drug Combinations In Personalized Medicine
… key pathways that may be driving the disease biology. Next, we develop a system for incorporating drug-target and pathway data from several different sources and predicting the perturbational effects of drugs on transcription. We then use these processed data—patient gene-expression and …
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Knowledge-fused Identification of Condition-specific Rewiring of Dependencies in Biological Networks
Gene network modeling is one of the major goals of systems biology research. Gene network modeling targets the middle layer of active biological systems that orchestrate the activities of genes and proteins. Gene network modeling can provide critical information to bridge the gap between causes and …
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Predictive Computational Modelling of the c-myc Gene Regulatory Network for Combinatorial Treatments of Breast Cancer
… computational model of the gene regulatory network in breast cancer focused on the c-myc oncogene and the differences between sub-clones. I model the system as a discrete, qualitative network, which can reproduce the conditions in heterogeneous tumours, as well as predict the effect of …
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Using biological and chemical information to improve understanding of drug mechanism of action on the systems-level
… on compound MoA across different levels of biology. This presents an opportunity to investigate approaches for integrating information sources and computational methods for the elucidation of a systems-level view of compound MoA, which is the topic of this thesis. In the first chapter, …
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TOWARDS UNDERSTANDING MODE-OF-ACTION OF TRADITIONAL MEDICINES BY USING IN SILICO TARGET PREDICTION
… targets of a combination on a representative network of the disease. The method found four synergistic combinations, ginsenoside Rb3 and cholic acid, ginsenoside Rb2 and ginsenoside Rb3, ginsenoside Rb3 and 11-hydroxyprogesterone and ginsenoside Rb2 and ginsenoside Rd agreed with the …
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Evolution of protein structure, function, and dynamics in biological systems
… biological systems to capture interactions of subnetworks and enzymes by analyzing evolving metabolic networks and find that hierarchical modularity is a key evolutionary principle of organization. Small world behavior increases at lower levels and decreases at higher levels of organization in …
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Algorithms for regulatory network inference and experiment planning in systems biology
… mathematical model of the protein regulatory network controlling cell division in budding yeast. (ii) I formulate several natural problems related to efficient synthesis of a target mutant from source mutants. These formulations capture experimentally-useful notions of verifiability (e.g., the …
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Computational Approaches to Delineate Transcriptional and Functional Heterogeneity In Pancreatic Cancer
… focused on a) establishing a PDAC co-expression network to serve as a foundation for quantifying disease diversity within the cohort, while in parallel b) optimizing an analytical approach to allow for <em>in vivo </em>CRISPR-Cas9 functional genomics using select models from the cohort. Applying …
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Das System der Strategie : ein Vergleich zwischen Strategien biologischer Systeme und militärischen Strategien ; eine Modellentwicklung
Das vorliegende Buch vergleicht Strategien biologischer Systeme mit militärischen Strategien. Die zentrale Fragestellung ist dabei darauf gerichtet, ob es neben systemischen Gemeinsamkeiten auch gemeinsame oder ähnliche Strukturmuster und ähnliche Prozessabläufe beispielsweise sowohl im …
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Determining how stable network oscillations arise from neuronal and synaptic mechanisms
… patterns are commonly mediated by neural networks that produce an oscillatory activity pattern, where different neurons maintain a relative phase relationship. This thesis examines the relationships between the cellular and synaptic properties that give rise to stable activity in the form …