RELACS nuclei barcoding enables high-throughput ChIP-seq

• DOI: 10.1038/s42003-018-0219-z
• Publication Date: 2018-11-28T13:55:45Z
• Authors: Laura Arrigoni; Hoor Al-Hasani; Fidel Ramírez; Ilaria Panzeri; Devon Patrick Ryan; Diana Santacruz; Nadia Kress; John Andrew Pospi...; Ulrike Bönisch; Thomas Manke
• Keywords: Chromatin immunoprecipitation; DNA Barcoding

Chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) is an invaluable tool for mapping chromatin-associated proteins. Current barcoding strategies aim to improve assay throughput and scalability but intense sample handling lack of standardization over cell types, numbers epitopes hinder wide-spread use in the field. Here, we present a method enable high-throughput ChIP-seq using common molecular biology techniques. The method, called RELACS (restriction enzyme-based labeling chromatin situ) relies on standardized nuclei extraction from any source employs cutting within intact nuclei. Barcoded are pooled processed same ChIP reaction, maximal comparability workload reduction. innovative concept particularly user-friendly suitable implementation large-scale clinical studies scarce samples. Aiming maximize universality scalability, can generate libraries transcription factors histone modifications hundreds samples three days.