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 5 of 5 for “"TSA-Seq"”.
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"""TSA-Seq"": a novel proximity mapping approach for studying three dimensional genome organization and function"
… microscopic information with the linear genome sequence. In this dissertation, I describe ""TSA-Seq"", a novel proximity mapping approach I have developed to study 3D genome organization. TSA-Seq transfers cytological distance information into a genomic plot, allowing us to detect chromosome …
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Genomic and microscopic dissection of nuclear compartmentalization and function
… from the nuclear periphery to the center. Sequencing-based methods (Hi-C, DamID) suggest the genome could be partitioned into two compartments: transcriptionally active and inactive chromatin positioned at the interior and periphery of the nucleus, respectively. Newer genomic methods …
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Genomic and microscopic dissection of large-scale chromatin compaction
… I have developed a new genomic method, based on TSA-seq, to measure chromatin compaction. TSA-Seq is a genomic method that directly probes the average physical distances of chromosome loci relative to different nuclear structures. Here I use the first derivative, or slope, of the TSA-Seq signal …
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Computational approaches for analyzing regulatory regions in the human genome
… also account for the uncertainty of the multiple sequence alignment (MSA) and high turnover rate of TFBS. Based on ANTICE, we generated by far the largest genome-wide landscape of lineage-specific transcription factor binding sites (TFBS) using 680 human ChIP-seq datasets from the ENCODE project. …
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Multiscale Modeling of Genome Organization: Bridging Polymer Physics, Molecular Dynamics, and AI
… reproduces experimental data from Hi-C, TSA-seq, DamID, and DNA-MERFISH. The developed software is fully open-source and GPU-accelerated, enabling large-scale simu- lations and mechanistic explorations. In Chapter 3, we explore the impact of genome organization on various biological phe- …