TY  - JOUR
A1  - He, Housheng Hansen
A1  - Meyer, Clifford A.
A1  - Chen, Mei Wei
A1  - Jordan, V. Craig
A1  - Brown, Myles
A1  - Liu, X. Shirley
T1  - Differential DNase I hypersensitivity reveals factor-dependent chromatin dynamics
Y1  - 2012/06/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1015 
EP  - 1025 
DO  - 10.1101/gr.133280.111 
VL  - 22 
IS  - 6 
UR  - http://genome.cshlp.org/content/22/6/1015.abstract 
N2  - Transcription factor cistromes are highly cell-type specific. Chromatin accessibility, histone modifications, and nucleosome occupancy have all been found to play a role in defining these binding locations. Here, we show that hormone-induced DNase I hypersensitivity changes (ΔDHS) are highly predictive of androgen receptor (AR) and estrogen receptor 1 (ESR1) binding in prostate cancer and breast cancer cells, respectively. While chromatin structure prior to receptor binding and nucleosome occupancy after binding are strikingly different for ESR1 and AR, ΔDHS is highly predictive for both. AR binding is associated with changes in both local nucleosome occupancy and DNase I hypersensitivity. In contrast, while global ESR1 binding is unrelated to changes in nucleosome occupancy, DNase I hypersensitivity dynamics are also predictive of the ESR1 cistrome. These findings suggest that AR and ESR1 have distinct modes of interaction with chromatin and that DNase I hypersensitivity dynamics provides a general approach for predicting cell-type specific cistromes. 
ER  -