Development of an Illumina-based ChIP-exonuclease method provides insight into FoxA1-DNA binding properties.
- Abstract:
- ChIP-exonuclease (ChIP-exo) is a modified ChIP-seq approach for high resolution mapping of transcription factor DNA sites. We describe an Illumina-based ChIP-exo method which provides a global improvement of the data quality of estrogen receptor (ER) ChIP and insights into the motif structure for key ER-associated factors. ChIP-exo of the ER pioneer factor FoxA1 identifies protected DNA with a predictable 8 bp overhang from the Forkhead motif, which we term mesas. We show that mesas occur in multiple cellular contexts and exist as single or overlapping motifs. Our Illumina-based ChIP-exo provides high resolution mapping of transcription factor binding sites.
- Authors:
- AA Serandour, GD Brown, JD Cohen, JS Carroll
- Journal:
- Genome Biol
- Citation info:
- 14(12):R147
- Publication date:
- 27th Dec 2013
- Full text
- DOI