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10.1101/gr.192294.115

http://scihub22266oqcxt.onion/10.1101/gr.192294.115
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C4617971!4617971!26314830
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suck abstract from ncbi


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pmid26314830      Genome+Res 2015 ; 25 (11): 1757-70
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  • Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions #MMPMID26314830
  • Schep AN; Buenrostro JD; Denny SK; Schwartz K; Sherlock G; Greenleaf WJ
  • Genome Res 2015[Nov]; 25 (11): 1757-70 PMID26314830show ga
  • 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.
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