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 20 of 32 for “"pathway enrichment"”.
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Using biological and chemical information to improve understanding of drug mechanism of action on the systems-level
… such as machine learning, causal reasoning and pathway enrichment to gain insights 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 …
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Elucidation of the pathways underlying the spectrum of cancers affecting different tissues in lynch syndrome
… by investigating driver genes and dysregulated pathways in CRC, EC and breast cancer (BC) and to address whether BC may be part of the LS cancer spectrum. Furthermore, it aims to identify subtype-specific drugs targeting these pathways. Using somatic data from cBioPortal …
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N-terminomics/proteomics investigation of Calpain-2 substrates
… and Nterminomics data using bioinformatics and pathway enrichment tools (STRING-db (https://string-db.org) and Metascape (https://metascape.org/gp/index.html)). We validated proteolytically processed substrates of calpain-2. We have shown that calpain-2 has novel targets spleen tyrosine kinase …
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Computational methods to dissect the genetic basis of human disease
… notably in identifying relevant biological pathways, explaining mechanistic links between diseases, and nominating disease-critical tissues and cell types. In this thesis, I introduce computational methods to dissect the genetic basis of human disease by integrating GWAS with functional …
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Role of ETV5 Mutations in B Cell Acute Lymphoblastic Leukemia
… for R392P and V444I. Using RNA-seq and gene set enrichment analysis, all mutations demonstrated altered gene expression and pathway enrichment. Notably, T505A was suggested to downregulate the p53 pathway. Moreover, the T505A mutation caused a decrease in the transcript expression of B cell …
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Chronic Gestational Inflammation: Comparisons of Obesity-Mediated and Preeclampsia-Mediated Placental Inflammation using Transcriptomic and Histological Methods
… become compromised, targeting NAD+ signalling pathways and mitochondrial health. Rodent models of immune-driven PE and MO were previously established in our laboratory. Dams were euthanized at embryonic day 18.5, with assessments of fetal and placental weights. Placentas were then collected and …
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Omics analysis in understanding disease mechanisms
… in the analyses of differential abundance and pathway enrichment. Secondly, the exploration extended into the utilization of publicly available networks for studying disease mechanisms during treatment with a case study in Chronic Myeloid Leukaemia (CML). This chapter not only unveiled pathways …
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Precision Medicine Approach to Improving Reconstructive Surgery Outcomes for Breast Cancer Survivors
… dysregulated genes in severe capsules. Pathway enrichment was then performed which highlights IL4/13 signaling, extracellular matrix organization, antigen presentation, and interferon signaling as importantly dysregulated pathways. These RNA results were also compared to various clinical …
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The Role of Mitochondria in Oxygen Sensing of the Ductus Arteriosus and Fetal Pulmonary Arteries
… Transcriptomic analysis revealed mitochondrial pathway enrichment between hypoxic and normoxic DASMC. Among genes in ETC Complex I, NADH:Ubiquinone oxidoreductase core subunit S2 (NDUFS2) was uniquely downregulated by oxygen. 2) Knockdown of NDUFS2 reduced DASMC acute oxygen responsiveness …
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The Role of Mitochondria in the Development of Insulin Resistance and Type 2 Diabetes
… (NEM) genes in the aetiology of T2D. A pathway analysis approach is used to test for enrichment of T2D association signals across the genome in defined NEM gene sets. From this analysis, the biological pathways of glycolysis, the tricarboxylic acid cycle, and mitochondrial translation …
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Towards an understanding of the developmental zebrafish (Danio rerio) proteome and impacts of age-specific sensitivities with a model toxicant.
… approaches to employ the adverse outcome pathway (AOP) framework and new approach methodologies to increase throughput, reduce cost, and link molecular interactions to organismal and population scale consequences through the use of omic tools and alternative models. Proteomics is of …
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Single-cell Analysis of Structural and Immune Cell Interactions in Periodontitis
… studies have provided insight into inflammatory pathways, single-cell RNA sequencing (scRNA-seq) enables detailed characterization of cell-type–specific responses and coordinated interactions within the periodontal microenvironment. OBJECTIVE: This study aimed to compare the transcriptional …
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Enhanced evaluation of RNA expression in Esophageal Cancer tissues: Combining Microarray and RNA-Sequence approaches
… through distinct biological and epidemiological pathways, yet both are associated with poor prognoses. Barrett’s esophagus1 (BE), a metaplastic transformation of the normal oesophageal epithelium driven primarily by chronic gastroesophageal reflux, is a recognised precursor lesion for EAC. …
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Data-driven and Machine Learning approaches for exploration and inference of Biological Pathways in physiological and pathological states
… dynamic cellular interaction network. Biological pathways are used in an attempt to model this network. These pathways play a key role in advancing our understanding of cellular processes and are employed across a wide range of tasks. The utility of pathways is demonstrated in the first part of …
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Novel Statistical Methods for Mediation Analysis with High-dimensional Omics Mediators
… mechanisms, downstream analyses such as pathway enrichment analysis and functional annotation, canonical correlation analysis, and causal direction analysis are conducted. These analyses provide deeper insights into our findings and help validate the biological plausibility and …
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CHARACTERIZATION OF PLACENTAL AUTOPHAGY AND BIOENERGETICS, AND MATERNAL MICRORNAS PROFILING IN OBESE PREGNANCIES AND GESTATIONAL DIABETES MELLITUS
… vs NW of 1, and OB/GDM(+) vs OB/GDM(-) of 14. Pathway enrichment analysis by miRPath and miTALOS revealed many pathways associated with the set of miRNAs of each comparison, among which the most interesting and relevant in our context were related to nutrients and hormones metabolism, …
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Antimicrobial evaluation of selected medicinal plants using molecular approach
… of action of the tested drug, and itsbiological pathways in the cell to obtain information for optimisation of lead compounds.During the course of this study, bioassay-guided plant extraction, isolation protocols, andmany supporting analytical and biological methodologies were used and developed …
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Functional miRNA-based Phenotypic Screening as a tool to delineate HIV-host interactions and facilitate Novel Drug Discovery
… In silico miRNA target identification and pathway enrichment analysis identified 24 pathways associated exclusively with suppressed HIV replication, 10 pathways associated exclusively with enhanced HIV replication and 38 functional pathways enriched for both enhanced and suppressed viral …
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A Study of Machine Learning Approaches for Integrated Biomedical Data Analysis
… of the first project is to find biological pathways which are related to Duechenne Muscular Dystrophy(DMD) and Lamin A/C(LMNA) using the integration of multi-omics data. We proposed a novel method which allows us to integrate proteins, mRNAs and miRNAs to find disease related pathways. The …
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Clarification of the xanthan biosynthesis mechanism in Xanthomonas campestris pv. campestris B100 by mass spectrometry-based proteome analysis
… about possible protein complexes in a metabolic pathway. It could be proven by investigating known protein complexes and was used further to enlighten the structure of the xanthan biosynthesis mechanism.<br /><br /> II In the third project, the proteome of Xcc was studied under the "methionine …
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