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 21 for “"chromatin conformation"”.
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Chromatin Structure, Dna Methylation and Vitellogenin Gene Expression
The methylation patterns and the chromatin conformation of the Xenopus vitellogenin genes were examined to determine their relationship to the transcriptional state of the genes. The role of these two potential regulatory mechanisms was of particular interest because the estrogen induction of …
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The expression and regulation of pregnancy-specific glycoproteins in the mouse
… to Psg22 and its associated active local chromatin conformation, suggests an interesting epigenetic gene-specific regulatory mechanism that may be responsible for the high level of Psg22 expression relative to the other Psg family members upon trophoblast giant cell differentiation
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BAC transgene arrays as a model system for studying large-scale chromatin structure
The folding of interphase chromatin into large-scale chromatin structure and its spatial organization within nucleus has been suggested to have important roles in gene regulation. In this study, we created engineered chromatin regions consisting of tandem repeats of BAC transgenes, which contain …
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Characterizing 3D epigenomes in pathological conditions
… progenitor cells and neurons. By employing chromatin conformation capture methodologies, I have detailed the 3D genome structures across different layers in Trisomy 21 neural stem cells.</p> <p>Turning to SARS-CoV-2, I charted the three-dimensional chromatin structure and comprehensive …
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Information theoretic and machine learning techniques for emerging genomic data analysis
… to analyze and store three-dimensional chromatin conformation data generated from high-throughput sequencing technologies. In particular, I examine statistical properties of Hi-C contact maps and propose a few suitable formats to encode pairwise interactions between genome locations."
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Integrating -Omics For Studying Functional Role Of Ulcerative Colitis Risk Associated Loci.
… in UC relevant cell types. Method: We assessed chromatin activity (ATAC seq) and transcriptional behavior (RNA seq) of primary cell types extracted from intestinal biopsies and blood from diseased and healthy participant. Next, to pinpoint the mechanistic of how UC associated loci contributes to …
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Computational Methods for Integrating Microscopy with Chromatin Structures
… was well understood, but the development of chromatin conformation capture (3C) techniques has enabled the first thorough study of intermediate scales. These methods provide information about the distances between pairs of genomic loci, which gives indirect information about their positions. …
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Understanding the relationship between large-scale chromatin structure and gene expression
… into a complex DNA, RNA, and protein rich chromatin fibre, creating an interdependent functional relationship between the structure of the chromatin and the activity of the genetic features stored within. The composition of active genomic regions is weighted towards transcription factors, …
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The evolutionary genomics of CTCF binding and functional signatures in mouse.
… evolution, functional impact and involvement in chromatin conformation. The key findings of this investigation are: (1) the incorporation of young CTCF sites into the non-coding genome via action of transposable elements is followed rapidly with the exhibition of various characteristics of …
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Chromatin Architecture Aberrations Contribute and Acute Lymphoblastic Leukemia Relapse
… These aberrations can be found within the chromatin architecture of cancer cells that includes the genome, molecular modifications to the genome, and the three-dimensional organization of the chromatin fiber. The majority of genetic variants target non-coding regions of the genome and many …
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Identification of a Functional Hotspot on Ubiquitin Required for Stimulation of Methyltransferase Activity on Chromatin
… post-translational modifications modulate chromatin structure and function either by directly altering the intrinsic physical properties of the chromatin fiber or by nucleating the recruitment and activity of a host of transacting nuclear factors. Histone ubiquitylation is one class of …
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Characterizing the Role of TLX1 in T-cell Acute Lymphoblastic Leukemia
… changes in gene expression, epigenetics, chromatin accessibility, and 3D chromatin conformation at multiple stages of oncogenic transformation. TLX1 T-ALL human samples translocated TLX1 to the TCRδ locus and had diverse secondary mutations, and TLX1 strongly colocalized with the BAF …
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Investigating the chromatin dynamics that underlie CRISPRi-validated enhancer-promoter interactions
… mass detection of genome wide epigenetic marks, chromatin conformation, chromatin accessibility, and expression data. Nevertheless, the process of validating enhancer targets remained costly until recent developments of CRISPRi methods enabled large scale perturbation experiments for identifying …
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Genome-Wide and Multi-Scale Mapping of DNA Supercoiling in Differentiating Human Stem Cells
… the confined nuclear space of six microns. Chromatin folding is not only a cellular need, but is also crucial for gene regulation, and coordinates the precise rewiring of gene expression programmes in every cell type during developmental transitions. Therefore, our genome works in a dynamic …
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Role of ATRX in colorectal cancer metastasis
… mental retardation x-linked (ATRX) is a chromatin remodelling protein with established roles in regulating chromatin conformation, genomic stability, and homologous repair. ATRX is frequently mutated in many cancer types and in colorectal cancer (CRC) loss of ATRX is associated with the …
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Single-molecule G-quadruplex visualisation in live cells and 3D chromatin
… the potential involvement of G4s in 3D chromatin organisation. For this, G4 imaging was extended into 3D by super-resolution microscopy in fixed cells, and combined with single-cell Hi-C method. Hi-C is a fixed nucleus chromatin conformation capture technique that can simulate 3D …
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Investigating the role of rare genetic variants in the aetiology of haemostasis disorders
… implicated in haemostasis. I also generated chromatin conformation maps for the relevant genes using a capture Hi-C approach. Finally, I characterised the captured sequences by annotating them with cell type-specific epigenomic features, and I experimentally examined the regulatory potential …
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Small RNAs Regulate Transcription by Interacting with Noncoding RNA Transcripts
… the 5' and 3' ends of these genes are held in a chromatin loop, which I validated using a chromatin conformation capture assay. This brings the ends of the gene in close proximity to each other. Due to this interaction, short RNAs that bind a noncoding RNA at the 3' end of the gene also …
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Regulatory architecture of the Pax6 locus
… studies. I have set out to understand how the chromatin architecture of the locus contributes to the mechanism and specificity of cis-regulatory interactions. As well as addressing whether the DNA looping model for regulatory interactions applies to the mouse Pax6 locus, I will identify which …
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Regulatory dynamics of transcription factors TBX18 and WT1 in mouse prostate development
… downstream of the gene. We coupled circularized chromatin conformation capture (4C) and ATAC-seq from embryonic day 18.5 (E18.5) mouse urogenital sinus (UGS), with the goal of identifying elements that interact with the Tbx18 promoter in developing prostate. The data revealed dozens of active …
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