Leveraging biological replicates to improve analysis in ChIP-seq experiments.

ABSTRACT: ChIP-seq experiments identify genome-wide profiles of DNA-binding molecules including transcription factors, enzymes and epigenetic marks. Biological replicates are critical for reliable site discovery and are required for the deposition of data in the ENCODE and modENCODE projects. While early reports suggested two replicates were sufficient, the widespread application of the technique has led to emerging consensus that the technique is noisy and that increasing replication may be worthwhile. Additional biological replicates also allow for quantitative assessment of differences between conditions. To date it has remained controversial about how to confirm peak identification and to determine signal strength across biological replicates, particularly when the number of replicates is greate

SUBMITTER: Yang Y 

PROVIDER: S-EPMC3962196 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature