Protocol Genome-wide Interrogation of Protein-DNA Interactions in Mammalian Cells Using ChIPmentation

Mapping the genomic locations of chromatin-associated proteins, such as tran-scription factors and histone modifications, is key to understanding the mecha-nisms of transcriptional regulation. ChIPmentation offers a simple and robust way of investigating the genomic binding sites of a protein using relatively low-input material. Here, we present a detailed protocol for the key steps that lead to a successful ChIPmentation experiment, as well as a quick analysis pipe-line to examine the data. For complete details on the use and execution of this protocol, please refer to Schmidl et al. (2015). For example data produced by this protocol, please refer to Henriksson et al. (2019) and Zhang et al. (2019).