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 33 for “"histone marks"”.
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Bioinformatic methods for the analysis of genetic variability and regulation
… relationship between the epigenome, particularly histone post-translation modifications (PTM), and regulation of functional genomic elements. Histone marks control much of the workings of the genome. However, it remains unclear how different histone PTM combine within individual nucleosomes to …
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Determinants of piRNA precursor transcription and export in Drosophila melanogaster
… screen in Drosophila germ cells to identify histone marks and modifiers important for Rhino binding at dual-strand clusters. I showed that the Eggless, a H3K9 methyltransferase, and Enhancer of Zeste, a modifier of H3K27, are essential for cluster definition. Using a combination of imaging, …
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Role of ORCA and ORC in chromatin organization and DNA replication
… domains are enriched with repressive histone marks, including histone H3 lysine 9 methylation, written by lysine methyltransferases (KMTs). ORC along with the pre-RC protein Origin Recognition Complex-Associated (ORCA/LRWD1), preferentially localizes to heterochromatic regions in …
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Investigating The Role of The P63 Isoform Δnp63 In Lung Stem Cell Populations and Lung Cancer
… of ΔNp63 results in robust loss of enhancer histone marks at cell identity genes for lung progenitor populations of basal cells and AT2 cells. Analysis of ΔNp63-regulated pathways uncovered that ΔNp63 regulates cell-type-specific genes as well as common genes for basal cells and AT2 cells. …
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Characterising the MLL complex: epigenetic regulation of Hoxa genes
… factor that acts to regulate genes via its histone methyl-transferase activity. This study aimed to examine how MLL1 and its associated complex contribute to gene regulation in a functionally relevant cell background. To assess dynamic processes involved, we developed a haematopoietic Stem …
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Microfluidics for Low Input Epigenomic Analysis and Its Application to Brain Neuroscience
… cell-type-specific and spatially resolved histone modification profiling on microfluidic platforms. First, I applied Microfluidic Oscillatory Washing-based Chromatin Immunoprecipitation followed by sequencing (MOWChIP-seq) to study the effect of culture dimensionality, hypoxia stress and …
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Visualizing and interpreting convolutional neural networks on genomic data
… uncorrelated genome annotations including histone marks, DNase hypersensitivity, and transcription factor binding that suggest shared biological mechanism.
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THE IMPACT OF REPLICATION STRESS ON THE EPIGENOME OF MOUSE EMBRYONIC STEM CELLS
… cell identity and genome integrity, epigenetic marks are faithfully inherited during DNA replication through tightly coordinated processes. Our recent work demonstrated that disruption of DNA replication, known as replication stress, can expand the cell fate of mouse embryonic stem cells (mESCs) …
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Investigating the molecular dynamics of gene re-silencing following treatment with epigenetic therapies
… eviction and the acquisition of active histone marks at the MLH1 promoter. However, close inspection of the early stages of gene re-silencing showed that loss of expression occurred despite persistent hypomethylation. Instead, gene re-silencing coincided with the reassembly of …
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DISCOVERY OF NOVEL EPIGENETIC MECHANISMS OF CARCINOGENESIS BY GENOME-WIDE PROFILING OF NON-CODING REGULATORY ELEMENTS
… events. Far less is known about the role of histone modifications in epigenetic mechanisms of human cancers, and of disease in general. There are a number of reasons why histone modifications are especially important to investigate in the context of tumor formation. While DNA methylation …
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Engineered biomaterials as extracellular microenvironments for guiding cell programming and reprogramming
… (STAT) pathways, and regulation of distinct histone marks, to guide gene expression underlying the phenotypic alterations of malignant melanoma. Overall, we believe the work presented here demonstrates the importance and utility of extracellular properties in modulating cell programming and …
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IDENTIFICATION OF CANCER- AND METASTASIS-RELATED EPIGENETIC DYNAMICS USING PATIENT-DERIVED ORGANOIDS
… types of metastases and characterized their histone mark profiling through chromatin immunoprecipitation followed by sequencing (ChIP-seq). In order to provide a global genome-wide annotation of chromatin regions, we evaluated the combinatorial distribution of five histone marks (H3K27ac, …
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Regulation of the Heterochromatin Protein 1 by Phosphorylation of Histone H3 and the HP1 Hinge Domain
<p>Chromatin, a polymer formed from DNA, histones, and associated proteins, is the physiological form of genetic information in all eukaryotic cells. Posttranslational modification of histones, such as acetylation, methylation, and phosphorylation, regulates various DNA-dependent processes, ranging …
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TMEFF2 is an epigenetic modulator that promotes androgen independent growth in castration-resistant prostate cancer cells
… DNA methylation and the methylation of multiple histone lysines, play significant roles in prostate cancer (PCa). Many histone methyltransferases (HMT) and demethylases (HDM), including the JMJD2 family of histone demethyalses, act as coregulators of AR, and many of these enzymes are implicated …
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Mechanisms of piRNA-guided co-transcriptional gene silencing
… tools to profile the genome-wide distribution of histone modifications. In the final part of this work, I established a modified CUT&RUN (Cleavage Under Targets & Release Using Nuclease) protocol that relies on chromatin reader domains fused directly to Micrococcal Nuclease (MNase) and allows …
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MYC-DEPENDENT TRANSCRIPTIONAL CONTROL IN HUMAN LYMPHOMA
… profiles for MYC, RNA-PolII and several histone marks. Our analyses showed that MYC-AID removal resulted in rapid losses of RNA-PolII from MYC-dependent loci. These effects were proportionate at promoters and gene bodies, suggesting a role of MYC for RNA-PolII loading at those loci. …
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Exploring functional significance of asymmetric DNA methylation in early mammalian development
… ES cells, CH methylation correlates with active histone marks e.g. H3K4me3, and inversely with H3K27me3. The distribution of mCH, both in ESC naïve and primed pluripotency states, is very heterogeneous, while its nuclear distribution is very homogenous. mCH is physically recognised by a number of …
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Gene expression from unintegrated HIV-1 is restricted by the SMC5/6 complex
… I showed that SLF2 induces a loss of activating histone marks on unintegrated virus. The SMC5/6 complex belongs to the structural maintenance of chromosomes (SMC) family of proteins that share the ability to topologically entrap and translocate DNA, which can lead to chromatin compaction. Using …
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Characterisation of the non-canonical zinc finger protein ZFP263 in mouse
… co-factor but mostly co-localize with active histone marks. My findings lead me to hypothesise that ZFP263 has evolved to target active epigenetic states to unique regions that are positive regulators of transcription, in contrast to the more canonical model of KZFP function. To test this …
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PHF6 is a novel regulator of B-cell identity in acute lymphoblastic leukemia
… function. ChIP-Seq analysis of PHF6 and several histone marks revealed that PHF6 and H3K27ac signals co-localize close to the transcription start site and enhancer regions of a significant proportion of differentially expressed genes. Transcription factor binding motif analysis revealed …
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