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 22 for “"Spatial Transcriptomic"”.
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Spatial transcriptomic analysis of low-grade intestinal T-cell lymphoma and lymphoplasmacytic inflammatory bowel disease in cats
… samples from cats with LGITL and IBD using spatial transcriptomics, formalin-fixed paraffin-embedded cat jejunum and ileum samples were used, six with a diagnosis of LGITL and six with a diagnosis of IBD. Endoscopy biopsies and full-thickness biopsy and necropsy samples were included. Three …
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A Single Cell and Spatial Transcriptomic Investigation of Traumatic Brain Injury: Novel insights into endothelial-derived Eph signaling
… advanced techniques like single-cell RNA and spatial transcriptomic sequencing, in addition to our newly established dual dye-labeling system. The central hypothesis is that endothelial cell-specific deletion of EphA4 enhances BBB integrity, characterized by changes in single cell gene …
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Integration of Spatial Transcriptomics with Chromatin Images Using Graph-Based Autoencoder Identifies Joint Biomarkers for Alzheimer’s Disease
… nuclear morphology, as well as gene expression. Spatial transcriptomic technologies, such as STARmap and 10x Visium, allow the joint measurement of these different modalities in whole tissue sections.1,2 However, methods for jointly analyzing the different spatial data modalities in 3D are still …
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Immune Landscape of early liver metastatic lesions in a Novel Immunocompetent Murine Colorectal Cancer Metastasis Model
… microscopic tumor lesions. Through genomic and transcriptomic analyses, we pinpointed the importance of macrophages, particularly those expressing high levels of CSF1R, in these microscopic metastatic focal lesions. We conducted macrophage- targeted immunotherapy using anti-CSF1R. Treatment of …
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Mechanisms of DNA double strand break-mediated neurotoxicity in neurodegenerative disease
… using single-nucleus, bulk, and spatial transcriptomic techniques. DSB-bearing neurons enter a late-stage DNA damage response marked by NFκB-activated senescent and antiviral immune pathways. In humans, Alzheimer’s disease pathology is significantly associated with immune …
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Selective Neuronal Vulnerability in Neocortices from Patients with C9ORF72-related Neurodegeneration
… With recent advances in single-cell and spatial transcriptomic approaches, our hypothesis can now be investigated in an unbiased fashion and at unprecedented resolution. The work in this thesis focuses on identifying selectively vulnerable neurons in the post-mortem primary motor cortex …
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Tracing RNA biography: in situ transcriptome profiling by novel spatial omics technologies
… and translation within individual cells across spatial and temporal dimensions. Therefore, it is critical to methodically delineate the spatially resolved post-transcriptional regulations within transcriptomes, studying these events at the single-cell and single-molecule level. This advantage is …
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Probabilistic models to resolve cell identity and tissue architecture
… of these processes using single-cell and spatial genomic data. Spatial transcriptomic technologies promise to resolve cellular wiring diagrams of tissues in health and disease, but comprehensive mapping of cell types in situ remains a challenge. I present cell2location, a Bayesian model …
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An omics study into the molecular impact of autosomal dominant APP and MAPT mutations on the cerebral cortex
… mutations, I describe the generation of transcriptomics and proteomics datasets with the goal of uncovering transcriptional and translational pathways driving AD linked to APP and MAPT mutations. The first half of this thesis focuses on the differentiation of patient-derived iPSCs …
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Alteration of differentiation in glioblastoma: from spatial transcriptomics approaches to the identification of a suppressor event
… valuable insights, they lack the essential spatial context that is critical for unravelling the heterogeneity of glioblastoma. This limitation impedes the understanding of interactions among distinct subpopulations and their intricate relationships with the neuronal microenvironment. To gain …
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Investigating white matter alterations and secondary neurodegeneration with MRI imaging and pathology in a mouse model of ischaemic stroke
… provides a foundation for future studies using spatial transcriptomic approaches to define the molecular correlates of these remote neuroimaging and pathophysiological changes.
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Large-scale inference and imputation for multi-tissue gene expression
… representation learning approach that leverages spatial information to improve the reconstruction of tissue architectures from spatial transcriptomic data. Collectively, this thesis develops flexible and powerful computational approaches for the analysis of tissue-specific gene expression data.
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Integrative Approaches in Genomic Analysis: Advancing Epigenetic Prediction, Twas Methodology, and Cell-Type Deconvolution in Spatial Transcriptomics
… In Chapter 4, we turn our attention to spatial transcriptomics, which measures gene expression in situ on slices of tissue. We present a novel zero-inflated hierarchical generalized transformation (ZI-HGT) model that functions as a noisy transformation for cell-type deconvolution with …
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Hypothalamic control of energy rheostasis during metabolic challenges, pregnancy, and lactation
… Chemogenetic manipulation, fiberphotometry, and spatial transcriptomics revealed that pregnancy increases AgRP neuron activity and decreases POMC neuron activity in the arcuate nucleus. Chemogenetic activation of POMC neurons or inhibition of AgRP neurons suppressed pregnancy-induced feeding, …
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Dissecting the spatio-temporal development of the human reproductive tract
… regulated processes of sex differentiation, spatial patterning, and morphogenesis, which, when disrupted, can lead to congenital alterations and long-term reproductive disorders. In this thesis, I generated the first comprehensive single-cell and spatial transcriptomic atlas of the human …
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Elucidating Mechanisms Involved In Host Microbial-Tumor Interactions
… We assessed the effect of microbial burden on transcriptomic changes in tumor and neighboring cells in PDAC through two independent spatial transcriptomic approaches. These analyses revealed that tumoral IL-17 signaling was enriched in the presence of tumor cells with high microbial burden. …
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Developmental Basis of Wing Pattern Diversity in Heliconius Butterflies
… different mechanism. Finally, I investigated the spatial transcriptomic landscape across the wings of three different heliconiine butterflies. I identified candidate factors for regulating the expression of wing patterning genes, including genes with a conserved expression profile in all three …
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Spatially-resolved multiomic profiling of the human heart in adulthood and development
… diversity and function by generating two spatially-resolved cell atlases, encompassing the heart in adulthood and development. Chapter 1 summarises cardiac development, cardiac innervation, and the cardiac conduction system, before providing a brief review of the strengths and weaknesses …
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Quantitative spatial transcriptomics of the developing brain
… and cellular heterogeneity can be studied at the transcriptomic level using RNA sequencing methods, but techniques that quantitatively investigate the spatial dynamics of cell heterogeneity across large tissue areas at a single-cell level are lacking. Applying this capability to the developing …
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Maximizing Local Access to Therapeutic Deliveries in Glioblastoma: Evaluating the utility and mechanisms of potential adverse events for minimally invasive diagnostic two novel therapeutic techniques for brain tumors
… the use of magnetic resonance spectroscopic and spatial transcriptomic methods to further quantify the in vivo effects of H-FIRE treatment on glutamate release and metabolism in dogs with spontaneous brain tumors. The in vitro results indicated that the magnitude of glutamate release following …
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