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Investigating tumour evolution through graph theoretical analysis of gene regulatory networks

Upton, Alex (2014)
Ph.D. thesis, University of Birmingham.

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The main aim of this work was to develop methods to aid biologists and clinicians investigate the progression and evolution of tumours through the analysis of microarray data, concentrating on the inference and analysis of Gene Regulatory Networks (GRNs) representing different evolutionary and clinical stages of cancer microarray data. Three main areas of work were carried out.

The first was the development and implementation of a network inference method designed to infer GRNs at differently defined classes from a single microarray dataset.

The second was the investigation of appropriate graph theory metrics to quantitatively analyse the different defined stages of disease. Genes identified by the various metrics were scored for the particular disease of interest, allowing the graph theory metrics to be ranked against each other for the various GRNs.

The third was the comparison of GRNs inferred for different disease stages across datasets for the same disease, neuroblastoma, from two different studies.

This work has shown that analysis of GRNs inferred using a method designed to infer multiple GRNs from a single microarray dataset has identified genes involved in different stages of disease, thereby having the potential to aid in the investigation of the progression and evolution of tumours.

Type of Work:Ph.D. thesis.
Supervisor(s):Arvanitis, Theodoros N. and McConville, Carmel and Peet, Andrew
School/Faculty:Colleges (2008 onwards) > College of Engineering & Physical Sciences
Department:School of Electronic, Electrical and Computer Engineering
Subjects:Q Science (General)
RC0254 Neoplasms. Tumors. Oncology (including Cancer)
T Technology (General)
Institution:University of Birmingham
ID Code:5039
This unpublished thesis/dissertation is copyright of the author and/or third parties. The intellectual property rights of the author or third parties in respect of this work are as defined by The Copyright Designs and Patents Act 1988 or as modified by any successor legislation. Any use made of information contained in this thesis/dissertation must be in accordance with that legislation and must be properly acknowledged. Further distribution or reproduction in any format is prohibited without the permission of the copyright holder.
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