ATAC-seq was designed with speed in mind; we have optimized the protocol to require a total time of 3 hours. The above protocol for nuclei extraction requires 30 minutes. Transposition and purification requires 45 minutes. PCR and purification requires 1 hour and 45 minutes. Methods for QC and library quantitation can vary. A natural stopping point exists after transposition and cleanup, at which point DNA fragments can be frozen indefinitely prior to the PCR amplification.
