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 13 of 13 for “"Topologically Associating Domains"”.
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Unfolding genome organization in interphase
… chromosomes, including self-interacting topologically associating domains (TADs) which are believed to function as coherent gene regulatory neighborhoods. However, the mechanisms driving these patterns are still unknown. In this thesis, I describe and apply computational methods that test …
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Characterizing 3D epigenomes in pathological conditions
… A and B, reduced interactions within topologically associating domains (TADs). Notably, a targeted depletion of the cohesin complex within TADs points to a potential interference with loop extrusion processes by the infection. Accompanying these structural and epigenome disturbances is …
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Changes of nucleosome positioning and 3D chromatin organization in cell transitions
… by relatively large loops of DNA such as topologically associating domains (TADs) which serve to insulate some loci from the rest of the genome. A major determinant of the chromatin domain boundaries is the architectural protein CTCF that binds to thousands of locations in the genome and …
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3D chromosome structure and chromatin proteomics
… insulators (CTCF-CTCF loops) were shown to form topologically associating domains (TADs) and insulated neighborhoods, which were mostly preserved in the transition between naive and primed states. Insulated neighborhoods are critical for proper gene expression, and their disruption leads to the …
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Genome-Wide and Multi-Scale Mapping of DNA Supercoiling in Differentiating Human Stem Cells
… from kilobase genes, through larger-scale topologically associating domains, to megabase epigenomic compartments. Crucially, we observed the formation of supercoiling domains throughout the genome and revealed their temporal remodelling due to transcriptional activity and …
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Characterization of Boundary Element-Associated Factors BEAF-32A and BEAF-32B and Identification of Novel Interaction Partners in Drosophila Melanogaster
… and gene regulation. We characterized essential domains in the BEAF-32 protein and identified protein partners, some of which include Transcription Factors (TFs). We further mapped the interaction regions inside BEAF and these TFs. We then attempted Fluorescent Recovery After Photobleaching …
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The 3d Genome As A New Dimension In Understanding Pathologic Short Tandem Repeat Instability
… at boundaries demarcating 3D genome folding domains termed topologically associating domains (TADs) and subTADs and (2) repeat expansion in the FMR1 gene, the genetic driver for Fragile X Syndrome, results in grossly mis-wired genome folding genome-wide and at the boundary encompassing the …
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Reconstructing Chromothriptic Chromosomes in Oesophageal Adenocarcinomas
… compartmentalisation of genomic sequences into topologically associating domains, to chromosome looping, to short-range promoter-enhancer interactions. The underlying genome sequence contributes to this regulation, likely at a variety of scales, however the extent of this contribution is not …
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The Nucleosome Remodelling & Deacetylase complex: Genome folding & transcriptional regulation
… features such as chromatin compartments, topologically associating domains (TADs) and chromatin loops mediated by key architectural proteins such as CTCF and Cohesin. It has further been used to establish physical models of gene regulation such as loop extrusion. Chromatin remodeling …
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The interplay of global chromosomal organisation, promoter-enhancer interactions and transcription
… of spatial genomic structures, including Topologically Associating Domains (TADs). In parallel, high-resolution versions of these technologies (such as 5C, CHiA-PET, HiChIP and Capture Hi-C) have detected multitudes of novel looping interactions, including connections between promoters and …
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Higher Order Chromosome Organization and Recombination Dynamics of Meiotic Prophase I In Mouse Spermatocytes
… loop extrusion as chromosomes condense. While topologically associating domains disappear at the onset of meiotic prophase I, chromosome compartments are well maintained. Most meiotic DSBs occur within a gene-dense open compartment A, suggesting that higher order chromosome structure plays an …
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Insights into transcriptional regulation from natural and induced variation in closely related species
… with the establishment and maintenance of topologically associating domains (TADs). TADs make up a level of the 3D genome organisation that dictates formation of regulatory landscapes. Although it is known that CTCF plays an important role in TAD formation, evidence of TAD boundaries being …
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The chromatin landscape of colorectal cancer cells
… of chromatin organisation, chromatin loops and topologically associating domains (TADs) compartmentalize genomic loci and their corresponding molecular transcriptional elements in three-dimensional space. Transcription of the human genome is proximity-dependent requiring the cooperative …