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 20 of 101 for “"Gene set"”.
-
Statistical methods for gene set based significance analysis.
Gene set enrichment analysis (GSEA) is a method to identify groups of genes, which are statistically more differentially expressed than all other genes across different treatments within a microarray study. Most of the existing approaches have largely relied on nonparametric methods and require …
-
Microarray-based gene set analysis in cancer studies
… addresses the development and application of gene set analysis methods to problems in microarray-based data sets. The work consists of three parts. In the first part a gene set analysis method (PCOT2) is developed. It utilizes inter-gene correlation to detect significant alteration in gene …
-
Bayesian Hierarchical Latent Model for Gene Set Analysis
Pathway is a set of genes which are predefined and serve a particular celluar or physiological function. Ranking pathways relevant to a particular phenotype can help researchers focus on a few sets of genes in pathways. In this thesis, a Bayesian hierarchical latent model was proposed using …
-
Investigating the effect of paralogs on microarray gene-set analysis
… analysis of individual differentially expressed genes to analyses of sets of genes. These gene-set analysis (GSA) methods use previously accumulated biological knowledge from databases such as the Gene Ontology (GO) or KEGG to group genes into sets based on their annotations. They aim to rank …
-
Computational development of regulatory gene set networks for systems biology applications
… on the identification of interactions among genes or the identification of a gene set ranking according to differentially expressed gene lists, little is known about interactions between higher order biological systems, a network of gene sets. Several types of gene set network have been …
-
Genetic Risk Factors for PTSD: A Gene-Set Analysis of Neurotransmitter Receptors
… in many afflicted individuals. The pathogenesis of PTSD is not well understood, and genetic mechanisms are particularly elusive. Neurotransmitter systems are thought to contribute to PTSD etiology and are the targets of most pharmacotherapies used to treat PTSD, including the only two FDA …
-
Using co-expression to redefine functional gene sets for gene set enrichment analysis
Manually curated gene sets related to a biological function often contain genes that are not tightly co-regulated transcriptionally. which obscures the evidence of coordinated differential expression of these gene sets in relevant experiments. To address this problem, we explored strategies to …
-
Gene Set Analysis of Post-Lactational Mammary Gland Involution Gene Signatures In Inflammatory and Triple Negative Breast Cancer
… involution period mimics wound healing and tumorigenesis like pathological conditions. This indicates that post-lactational involution may create the microenvironment that initiates the development of precancerous mammary cells and promotes the progression of precancerous cells into cancer cells. …
-
Gene Set Anomaly Score: A Genomic Data and Knowledge Driven Approach for Analysing Anomalous Gene Expression in Cancer Patients
Genomics research often uses Gene Set Enrichment Analysis (GSEA) to rank genes that correlate with the presence of phenotypical traits and to interpret how variations in gene expression influence those traits. GSEA provides an explanation of found genes through their associations with gene sets. As …
-
A histopathological and genomics study of the mutated human FAM111B gene related POIKTMP disease
… associated with mutations of the human FAM111B gene. FAM111B gene codes for a protein whose function is not well characterized. Therefore, elucidating the mechanism of FAM111B or its mutations in POIKTMP is beneficial to understanding the complexities surrounding this multisystemic fibrosing …
-
A histopathological and genomics study of the mutated human FAM111B gene related POIKTMP disease
… associated with mutations of the human FAM111B gene. FAM111B gene codes for a protein whose function is not well characterized. Therefore, elucidating the mechanism of FAM111B or its mutations in POIKTMP is beneficial to understanding the complexities surrounding this multisystemic fibrosing …
-
Genetic exploration of exercise associated sudden death in racehorses
… found to be an important underlying cause. The genetics underlying EASD have been largely unexplored in horses.Hypothesis: Thoroughbred racehorses with variants in ion channels and other arrhythmogenic genes are predisposed to a higher risk of EASD. Specific Aim1: This study aimed to identify …
-
Genomic response, bioinformatics, and mechanics of the effects of forces on tissues and wound healing
… Cellular behavioral changes can be traced to gene expression profile changes. These effects were studied in the context of Micromechanical force therapy, a novel therapeutic treatment in the management of different types of wounds. The mechanism of therapies that work by applying suction …
-
Optimization, random resampling, and modeling in bioinformatics
Quantitative phenotypes regulated by multiple genes are prevalent in nature and many diseases falls into this category. High-throughput sequencing and high-performance computing provides a basis to understand quantitative phenotypes. However, finding a statistical approach correctly model the …
-
Pareto Task Inference Analysis of Single-Cell RNASequencing of Human Placenta Reveals Biological Insightsinto Adverse Pregnancy Outcomes
… clustering. However, these techniques may generate limited representations of nuanced cellular functions and biological relationships among and within cell clusters. Pareto Task Inference (ParTI), a dimensionality reduction technique that fits data to an n-dimensional polygon or polytope, …
-
TOWARDS AN UNDERSTANDING OF GENETIC SELECTION IN BREAST CANCER
… genomes accumulate chromosomal abnormalities and gene mutations but must maintain the ability to survive in vitro. We sought evidence in breast cancer that genetic selection acts to maintain tumour survival. Analysis of genomes from 243 breast tumours revealed 766 unstable and 812 stable …
-
Multi-omics Data Integration for Identifying Disease Specific Biological Pathways
… technologies, a large amount of quantitative gene expression data have been continuously acquired. The springing up omics data sets such as proteomics has facilitated the investigation on disease relevant pathways. Although much work has previously been done to explore the single omics data, …
-
Exploring the Plasmodium falciparum Transcriptome Using Hypergeometric Analysis of Time Series (HATS)
… several strains sequenced and many microarray gene expression studies performed. Gene expression studies allow a full sampling of the genomic repertoire of a parasite, and their detailed analysis will prove invaluable in deciphering novel parasite biology as well as the modes of action of …
-
Integrated data analytics of germline mutation classes in human cancers. An integrated bioinformatics analysis to investigate associations between germline mutation classes and human cancers.
… was to investigate the impact of germline gene mutations, as a significant biological factor, on 29 major primary human cancers. For this I obtained data from multiple databases, including the Genetic Association Database (GAD), Sanger database (COSMIC), HGMD database, OMIM data and PubMed …
-
Understanding co-expressed gene sets by identifying regulators and modeling genomic elements
… phenotypes by identifying experimentally derived sets of functionally related genes with similar transcriptional profiles. These gene sets are then frequently subjected to statistical tests of association relating them to previously characterized gene sets from literature and public databases. …
Page 1 of 6