Spracklin George, Yang Liyan, Pradhan Sriharsa, Dekker Job
Program in Systems Biology, University of Massachusetts Medical School, Worcester, MA, USA.
New England Biolabs, Ipswich, MA, USA.
Methods Mol Biol. 2023;2611:53-61. doi: 10.1007/978-1-0716-2899-7_4.
Chromatin accessibility has been an immensely powerful metric for identifying and understanding regulatory elements in the genome. Many important regulatory elements, such as enhancers and transcriptional start sites, are characterized by "open" or nucleosome-free regions. Understanding the areas of the genome that are not considered open chromatin has been more difficult. Protect-seq is a genomics technique that aims to identify inaccessible chromatin associated with the nuclear periphery. These regions are enriched for histone modifications associated with transcriptional repression and correlate with loci identified by other techniques measuring heterochromatin and peripheral localization. Here, we discuss the protocol and best practices to perform Protect-seq.
染色质可及性一直是识别和理解基因组中调控元件的一项极其强大的指标。许多重要的调控元件，如增强子和转录起始位点，其特征是“开放”或无核小体区域。了解基因组中不被视为开放染色质的区域则更加困难。Protect-seq是一种基因组学技术，旨在识别与核周相关的不可及染色质。这些区域富含与转录抑制相关的组蛋白修饰，并与通过其他测量异染色质和外周定位的技术所确定的基因座相关。在这里，我们讨论执行Protect-seq的方案和最佳实践。
