ChIPmentation: fast, cheap, low-input ChIP-seq for histones and transcription factors

Chromatin immunoprecipitation followed by next generation sequencing (ChIP-seq) is widely used to map histone marks and transcription factor binding throughout the genome. Here we present ChIPmentation, a method that combines ChIP with sequencing library preparation by Tn5 transposase (“tagmentation”). ChIPmentation introduces sequencing-compatible adapters in a single-step reaction directly on bead-bound chromatin, which reduces time, cost, and input requirements, making ChIPmentation a convenient and high-throughput alternative to existing ChIP-seq protocols. This submission includes sequencing data for 87 samples: 52 ChIPmentation and 24 ChIP-seq for 10 different antibodies with at least two biological replicates each and matched immunoglobulin controls in the majority of cases; 2 ATAC-seq samples were sequenced for comparison; Additionally, 9 samples of a experimental protocol which we called “ChIP-tagmentation” were produced without replication.