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 17 of 17 for “"PPI network"”.
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Network to pology In Human Protein Interaction Data Predicts Functional Association
… a huge amount of protein-protein interaction (PPI) data in the past decade. This tremendously increases the need for developing reliable methods to systematically and automatically suggest protein functions and relationships between them. With the available PPI data, it is now possible to study …
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Network-based approach for post genome-wide association study analysis in admixed populations
… into the human protein-protein interaction (PPI) network to identify significant sub-networks or pathways associated with the trait of interest. This network-based method applies centrality measures within linkage disequilibrium (LD) on the network to search for pathways and applies a scoring …
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Protein-Protein Interaction Network Alignment
… complexes. A protein -protein interaction network is a graph that consists of proteins as vertices and their interactions as edges. Protein-protein interaction network alignment is very important in identifying protein complexes and predicting protein functions. Many algorithms based on …
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The Drosophila Interactions Database: Integrating The Interactome And Transcriptome
… expression data to generate context-relevant networks making DroID a one-of-a kind resource for biologists. In the two years since the upgraded DroID has been available, several studies have used the heterogeneous interaction data in DroID to advance our understanding of <i>Drosophila</i> …
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Protein Function Prediction Using Graph Convolutional Network
… language models (PLMs) and graph convolutional networks (GCNs), addressing the limitations of traditional methods that rely heavily on sequence similarity. The proposed model leverages diverse protein features, including sequences, protein-protein interaction (PPI) networks, and InterPro …
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Transcriptome profiling of infected chickens with newly emerged genotype VI I Newcastle disease virus strains
… using RNA sequencing, bioinformatics tools and PPI network analysis. Transcriptomic profiling indicates that virulent NDV-GVII significantly downregulates immunologically regulated genes and innate immune regulating pathways including fMLP signalling in neutrophils, Fcy receptor-mediated …
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Dimensionality Reduction, Feature Selection and Visualization of Biological Data
… features by combining existing ones based on a mapping technique; and feature selection, choosing an optimal subset of all features based on an objective function. In this dissertation, we show how our innovative reduction schemes effectively reduce the dimensionality of DNA gene expression data …
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Annotating Human Interactome to Predict Pathways and Systematically Analyzing Network Rewiring in Cancer across Multiple Tissues
Human protein-protein interaction (PPI) networks are essential in regulating most cellular processes and their disruption can cause complex diseases such as cancer. Currently, hundreds of thousands of binary PPIs comprise human interactome, but they lack annotations about tissue- or …
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An improved directed random walk framework for cancer classification using gene expression data
… is the combination between KEGG pathway and PPI network and named as walker network. The experimental results showed that the combination of SDW with walker network and linear regression is the best among all. SDW achieves an accuracy of 95.03% in average which is higher by 8.97% compare to …
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Predicting the Interactions of Viral and Human Proteins
… possible. It pools protein-protein interactions (PPIs) from different viruses sharing the same host. It further introduces taxonomic partitioning to make the reported performance reflect the situation of predicting for a novel virus. DeNovo avoids the expected low accuracy of such a prediction by …
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Algorithms for discovering disease genes by integrating 'omics data
… limited insights. To this end, data on molecular networks, including protein-protein interactions (PPI), provide a useful resource for uncovering the disease association of multiple molecules in the context of their biological function and interactions. In this thesis, we develop algorithms that …
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Integrative analysis of heterogeneous genomic datasets to discover genetic etiology of autism spectrum disorders
… phenotype, protein-protein interaction (PPI) network, or functional annotation. Another increasingly accepted view is that human diseases result from perturbations of molecular networks, and genes causing the same or similar diseases tend to be close to one another in molecular networks. …
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Network Based Prediction of Protein Localization Using Diffusion Kernel
… information in a protein-protein correlation network since correlated proteins tend to be co-localized within the cell. Here we propose a novel diffusion kernel and logistic regression based algorithm, NetLoc, for protein localization prediction by exploiting protein correlation networks. …
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Novel Monte Carlo Approaches to Identify Aberrant Pathways in Cancer
… 1) identification of transcriptional regulatory networks and 2) uncovering of aberrant intracellular signal transduction pathways. We propose a robust method, called GibbsOS, to identify condition specific gene regulatory patterns between transcription factors and their target genes. A Gibbs …
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Systems Biology of Host-Pathogen Protein-Protein Interactions
… often through protein-protein interactions (PPIs), to ensure its replication. Therefore, this thesis aims to integrate high-throughput proteomic approaches with computational modelling to systematically characterize SARS-CoV-2-human networks for a detailed understanding of SARS-CoV-2 …
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Uncovering the genetic basis of seed amino acid composition in arabidopsis using a multi-omics integrative approach
… the HCCGs to a protein-protein interaction (PPI) network that strongly suggests that ribosomal genes and potentially other translational machinery may be in the heart of PBAA composition homeostasis and the proteomic rebalancing response. Chapter Four addresses the need of a comprehensive …
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Pharmacogenomics of sickle cell disease therapeutics: pain and drug metabolism associated gene variants and hydroxyurea-induced post-transcriptional expression of miRNAs
… Additionally, protein-protein interaction (PPI) network and enriched biological processes and pathways were investigated. For association studies, statistical models using regression frameworks to analyse 40 variants were performed in R®. For miRNA expression, total RNA was isolated using …