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 15 of 15 for “"Gene Programs"”.
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Building a Methodological Framework for Cell Fate Engineering
… applicational potential of engineered cells in regenerative medicine, disease modeling, and drug discovery. Another challenge is that despite the advantages of in vivo reprogramming, such as more efficient and mature fate conversion, the underlying gene programs, and thereby the molecular …
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The myocyte enhancer factor-2 (MEF2) family mediates complex gene regulation in skeletal and cardiac myocytes
… our hypothesis and we observed distinct gene programs preferentially-sensitive to individual MEF2 isoforms. While there was no variance in the consensus binding site associated with regulation by individual MEF2 isoforms, we did observe uniquely enriched binding sites for candidate …
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Sequential Transcriptional Gates in The Thalamo-Cortical Circuit Coordinate Memory Consolidation
… the span of weeks. I then profiled the molecular programs that diverge between consolidated and forgotten memories across the anterior thalamus (ANT) and anterior cingulate cortex (ACC). Transcriptomic analyses identified distinct waves of transcription (cellular macrostates), unique to …
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Genome-Wide Analysis of Transcription Factors Ascl1 and Ptf1a in Development and Cancer
… factors to regulate tissue specific gene programs. Many of the same transcription factors can be found in multiple tissue types and are crucial for their development, and at other times these same factors can be misused in disease states. The basic helix-loop-helix (bHLH) factors …
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The Role of HNF4A in Germ Cell Tumor Development
… copy number variations are the primary genetic lesions discovered in yolk sac tumors. Frequent gains of chromosome 20q13 provide clues as to the identity of important YST driver genes. We have determined that the Hepatocyte Nuclear Factor 4 alpha locus, which resides in this region, is …
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Relationship between Processing Body Formation, Epithelial-to-Mesenchymal Transition, and Invasion in Lung Adenocarcinoma
… during metastasis. Many transcriptional gene programs are altered during EMT such as activation of mesenchymal transcription factors, like ZEB1, and enhanced response to the TGFβ1 cytokine. In oncogenic contexts, TGFβ1 enhances the formation of processing-bodies (P-bodies) where P-body …
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Molecular mediators of cardiac-specific enhancer activation
… how transcription factors (TFs) control gene expression programs is critical for determining the genetic pathways responsible for development. Heart development is particularly sensitive to precise control of gene programs as faulty regulation leads to congenital heart defects (CHD), the …
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Mapping and modeling macrophages in tuberculosis
… cues contributing to these states using ex vivo-generated macrophage models. To extend these findings, we identify conserved gene programs underpinning macrophage states across other lung diseases in humans. Similarly, we then describe macrophage and other immune cell states after Bacillus …
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scPhen: Single-Cell Phenotype Predictor for Alzheimer’s Disease
Advances in artificial intelligence (AI) and generative AI for representation learning have transformed our ability to model complex biological systems. Single-cell RNA sequencing (scRNA-seq) provides unprecedented resolution into cellular heterogeneity, offering a powerful substrate for modeling …
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Delineating Mechanisms of Signal-Induced RNA Polymerase II-Transcription
Signal-induced transcriptional programs regulate critical biological processes through the precise spatio-temporal activation of inducible gene programs. Understanding the dynamics by which RNA Polymerase II precisely induces transcription to activate these programs is important for dissecting the …
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Bioinformatic tools for single-cell data analysis in clinical studies
… utilize single-cell data to boost statistics and generate meaningful findings This thesis represents several parallel efforts to develop and apply new bioinformatic techniques to generate robust findings from single-cell data The advances are especially pertinent for small clinical studies in …
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Histone Deacetylase 7 and Transcriptional Regulatory Networks of the Vascular Endothelium
… to stimuli in part through the modulation of gene expression. Signal transduction from the environment to the nucleus culminates in the activation of factors that modify chromatin structure to either facilitate or inhibit gene transcription. Histone acetyltransferases (HATs) and histone …
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Dissecting NAMPT Signaling Pathways in Beige Adipocyte Development, Impairment and Maintenance
… (ER) stress and impaired cold-induced beige adipogenesis in inguinal white adipose tissue. Genetic reduction of NAMPT in SMA(^+) APCs recapitulates age-associated beige fat failure, whereas pharmacologic augmentation of NAD(^+) with nicotinamide mononucleotide (NMN) alleviates ER stress and …
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Deciphering Features of Protective or Maladaptive Cellular Immunity in the Airways Following Primary and Repeated Pathogen Exposure
… transient and long-lived changes in cellular epigenetics, gene expression networks, and cell type composition that may contribute to protective (or maladaptive) immunity; however, we lack a complete understanding of the pathogen and cellular determinants that modulate immunity upon reinfection. …
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Computational frameworks to unravel the immune landscape
… lack of well-annotated, context-specific immune gene sets. To address this need, I developed a workflow to construct immune gene sets by integrating RNA- seq datasets and performing decomposition. Using this approach, I constructed 28 immune- specific gene sets from 83 bulk RNA-seq datasets and …