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- W1937291806 abstract "Transcription factors canonically bind nucleosome-free DNA, making the positioning of nucleosomes within regulatory regions crucial to the regulation of gene expression. Using the assay of transposase accessible chromatin (ATAC-seq), we observe a highly structured pattern of DNA fragment lengths and positions around nucleosomes in Saccharomyces cerevisiae, and use this distinctive two-dimensional nucleosomal fingerprint as the basis for a new nucleosome-positioning algorithm called NucleoATAC. We show that NucleoATAC can identify the rotational and translational positions of nucleosomes with up to base-pair resolution and provide quantitative measures of nucleosome occupancy in S. cerevisiae, Schizosaccharomyces pombe, and human cells. We demonstrate the application of NucleoATAC to a number of outstanding problems in chromatin biology, including analysis of sequence features underlying nucleosome positioning, promoter chromatin architecture across species, identification of transient changes in nucleosome occupancy and positioning during a dynamic cellular response, and integrated analysis of nucleosome occupancy and transcription factor binding." @default.
- W1937291806 created "2016-06-24" @default.
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- W1937291806 date "2015-11-01" @default.
- W1937291806 modified "2023-10-17" @default.
- W1937291806 title "Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions." @default.
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- W1937291806 doi "https://doi.org/10.1101/gr.192294.115" @default.
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