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.
Results
Showing 1 to 14 of 14 for “"Computational Systems Biology"”.
-
Predicting angiogenic receptor trafficking and signaling via computational systems biology
… to provide effective VEGF therapeutics. Systems biology, defined as applying experiment and computational modeling to understand a biological system, can readily define this VEGF-angiogenesis network. In this dissertation, I provide an overview of how computational systems biology has …
-
Computational Systems Biology Analysis of Cell Reprogramming and Activation Dynamics
In the past two decades, molecular cell biology has transitioned from a traditional descriptive science into a quantitative science that systematically measures cellular dynamics on different levels of genome, transcriptome and proteome. Along with this transition emerges the interdisciplinary …
-
Algebraic Methods for Modeling Gene Regulatory Networks
… have been successfully used in engineering and computational systems biology. This thesis discusses algebraic methods for modeling and analysis of gene regulatory networks within the discrete modeling context. The first chapter gives a background for discrete models and put in context some of …
-
Bayesian causal inference of cell signal transduction from proteomics experiments
… using networks of interacting proteins. In computational systems biology, investigators apply machine learning methods for causal inference to develop causal Bayesian network models of signal transduction from experimental data. Directed edges in the network represent causal regulatory …
-
Biological Networks: Modeling and Structural Analysis
… </em>-cores in hypergraphs. A major challenge in computational systems biology is to understand the modular structure of biological networks. We construct computational models for predicting functional modules through the use of graph clustering techniques. The application of earlier graph …
-
Discovering contextual connections between biological processes using high-throughput data
… of data, the fields of bioinformatics and computational systems biology continue to bear increasingly sophisticated methods capable of summarizing and distilling pertinent phenomena captured by high-throughput experiments. Techniques in analysis of genome-wide gene expression (e.g., …
-
Computational Modeling for Differential Analysis of RNA-seq and Methylation data
Computational systems biology is an inter-disciplinary field that aims to develop computational approaches for a system-level understanding of biological systems. Advances in high-throughput biotechnology offer broad scope and high resolution in multiple disciplines. However, it is still a major …
-
Analysing concerted criteria for local dynamic properties of metabolic systems
Metabolic systems tend to exhibit steady states that can be measured in terms of their concentrations and fluxes. These measurements can be regarded as a phenotypic representation of all the complex interactions and regulatory mechanisms taking place in the underlying metabolic network. Such …
-
Systems biology of lung diseases: a multi-perspective view from host and pathogen
… diagnosis and treatment by leveraging tools in computational systems biology that try to account for the effects of the multitude of molecular components and their interactions that comprise both the human host and microbial pathogens. The biomarker discovery field is replete with molecular …
-
JigCell Model Connector: Building Large Molecular Network Models from Components
The ever-growing size and complexity of molecular network models makes them difficult to construct and understand. Modifying a model that consists of tens of reactions is no easy task. Attempting the same on a model containing hundreds of reactions can seem nearly impossible. We present the JigCell …
-
Biological Circuit Design via BioCAD Tools
In this thesis, will be presented BioCAD, a novel computational tool able to design optimal and robust biological circuits. In BioCAD, the main idea is to use Pareto optimality and the Electronic Design Automation methods for Systems and Synthetic Biology. However, BioCAD is a general purpose tool …
-
Extending Regulatory Network Modeling with Multistate Species
… number of reactions needed to represent certain systems and thus, lessen the cognitive load on modelers. A multistate species is an entity with a defined range for state variables, which refers to a group of different forms for a specific species. A multistate reaction involves one or more …
-
Probabilistic Approximation and Analysis Techniques for Bio-Pathway Models
Quantitative modeling of bio-pathway dynamics is crucial to the system-level understanding of cellular functions and behavior. Currently, a common method of representing bio-pathways is through a system of ordinary differential equations (ODEs). However, calibrating and analyzing large ODE-based …
-
Pharmacological targets for treatment of retinal neurodegenerations: new perspectives [Nuove prospettive sui target farmacologici per il trattamento della neurodegenerazione retinica]
Il glaucoma e la retinopatia diabetica, malattie degenerative che colpiscono la retina, rappresentano le principali cause di cecità al mondo. Nonostante la differente eziopatogenesi, il deterioramento morfologico e funzionale delle cellule retiniche rappresenta un evento comune ad entrambe le …