Use of microarrays to validate deep-sequencing libraries

Chromatin immunoprecipitation followed by ultra-high throughput (UHTP) sequencing (ChIP-seq) is a powerful tool to establish protein-DNA interactions genome-wide. The primary limitation of its broad application at present is the often-limited access to sequencers. Here we report a protocol, Mab-Seq, that generates preliminary quality evaluations and single-chromosome data for nucleic acid libraries intended for deep-sequencing. We show how commercially available genomic microarrays can be used to maximize the efficiency of library creation, quickly gene rate preliminary data on a chromosomal scale, and help establish the depth to which novel libraries will require deep sequencing.