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 4 of 4 for “"ChIP-exo"”.
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Simultaneous computational discovery of DNA regulatory motifs and transcription factor binding constraints at high spatial resolution
… at high spatial resolution from noisy ChIP-Seq data. I first present the genome positioning system (GPS) algorithm which predicts protein-DNA interaction events from ChIP-Seq data using a single-base resolution generative probabilistic model. Using synthetic and actual ChIP-Seq data, I …
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GENOME-WIDE PROTEIN MOLECULAR ARCHITECTURE OF HUMAN PROMOTERS
… study, we developed an advanced version of the ChIP-exo assay (v6), utilizing a combination of nucleases as high-precision structural probes to reconstruct these interactions with single-base genomic resolution. We show that for many TFs, their unbound CREs are typically translationally and/or …
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A TRIM28 centric strategy to efficiently uncover the contribution of KZFPs to the evolution of gene regulatory networks
… genome-wide maps of TRIM28 binding using ChIP-exo in multiple different cell types to understand which elements are differentially silenced between cellular contexts. Second, I demonstrate that endogenously tagged TRIM28 with an inducible protein degradation tag allows us to quantify early …
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Using a novel large-scale epigenetic analysis method to uncover the cis-regulatory potential of individual transposable elements
… elements bound by KZFPs in the TRIM28 ChIP-exo are accessible in other cellular contexts, showcasing the differential regulatory potential of KZFPs and their TE targets. In conclusion, this work provides a powerful new method of finding TEs with potential cis regulatory activity and …