PAtCh-Cap: input strategy for improving analysis of ChIP-exo data sets and beyond.

ABSTRACT: Recently, a number of advances have been implemented into the core ChIP-seq (chromatin immunoprecipitation coupled with next-generation sequencing) methodology to streamline the process, reduce costs or improve data resolution. Several of these emerging ChIP-based methods perform additional chemical steps on bead-bound immunoprecipitated chromatin, posing a challenge for generating similarly treated input controls required for artifact removal during bioinformatics analyses. Here we present a versatile method for producing technique-specific input controls for ChIP-based methods that utilize additional bead-bound processing steps. This reported method, termed protein attached chromatin capture (PAtCh-Cap), relies on the non-specific capture of chromatin-bound proteins via their carboxylate

SUBMITTER: Terooatea TW 

PROVIDER: S-EPMC5137431 | biostudies-literature | 2016 Dec

REPOSITORIES: biostudies-literature