Included are binding co-ordinates for various genomic datasets from some of the lab publications. All co-ordinates are Hg18 (March 2006) version of the human genome.
Hurtado, Nature, 2008
This paper includes the last ChIP-chip experiment we ever did. It is ER ChIP-chip data from MCF-7 breast cancer cells treated with estrogen
Link to dataset 1: downloadable files:
ER ChIP-chip
Ross-Innes, Genes Dev, 2010
This paper includes ER ChIP-seq data, RAR-alpha ChIP-seq data and ER-RAR-alpha Re-ChIP-seq data from MCF-7 breast cancer cells
Link to dataset 2: downloadable files:
ER and RARA ReChIP regions
ER binding events
RARA binding events
Hurtado, Nature Genetics, 2011
This manuscript includes ER ChIP-seq data from MCF-7, T47-D and ZR75-1 breast cancer cells, plus FoxA1 ChIP-seq data from MCF-7, T47-D and ZR75-1 cells. Also included in ER ChIP-seq in a Tam-R (tamoxifen resistant) MCF-7 derivative. In Tam-R cells, ER ChIP-seq was conducted under hormone-deprived conditions and treated with vehicle or tamoxifen. FAIRE data (nucleosome depleted regions) is provided. FAIRE was conducted in hormone deprived MCF-7 cells, transfected with siControl or siFoxA1 and treated with vehicle or estrogen.
Link to dataset 3: downloadable files:
FAIRE_siControl_Estrogen
FAIRE_siControl_Vehicle
FAIRE_siFoxA1_Estrogen
FAIRE_siFoxA1_Vehicle
MCF7_ER_binding
MCF7_FOXA1 binding
T47D_ER_binding
T47D_FOXA1 binding
Tamoxifen Resistant_ER_Tamoxifen
Tamoxifen resistant_ER_Vehicle
ZR751_ER_binding
ZR751_FOXA1 binding
Holmes, PNAS, 2011
This dataset represents ER binding events that occur when TLE1 is silenced (TLE1 independent) and ER binding events that only occur in the presence of TLE1 (TLE1 dependent) in MCF-7 cells
Link to dataset 4: downloadable files (human genome version hg18):
TLE1 dependent ER binding
TLE1 independent ER binding
Peak sets for individual libraries (human genome version hg18):
ER_siLuc_jc8_peaks.bed
ER_siLuc_jc31_peaks.bed
ER_siLuc_jc197_peaks.bed
ER_siTLE1_jc11_peaks.bed
ER_siTLE1_jc32_peaks.bed
ER_siTLE1_jc198_peaks.bed
PolII_siLuc_jc138_peaks.bed
PolII_siLuc_jc171_peaks.bed
PolII_siTLE1_jc139_peaks.bed
PolII_siTLE1_jc172_peaks.bed
Links to raw data at ArrayExpress:
-- FoxA1 ChIP
-- ER ChIP (siLuc and siTLE1)
Robinson, EMBO, 2011
This paper focuses on AR in MDA-MB-453 breast cancer cells. The data includes AR and FoxA1 ChIP-seq data from MDA-MB-453 breast cancer cells, which are ER- but AR+
Link to dataset 5: downloadable files:
LNCaP_ AR binding
LNCaP_FOXA1 binding
MDA-MB-453_AR binding
MDA-MB-453_FOXA1 binding
Zwart, EMBO, 2011
This paper provides ChIP-seq data for the SRC co-factors and p300/CBP family members. SRC1, SRC2, SRC3, p300 and CBP ChIP-seq were conducted in hormone deprived MCF-7 cells that were treated with vehicle or estrogen for 3hr.
Link to dataset 6: downloadable files:
MCF7_CBP_Estrogen
MCF7_CBP_Vehicle
MCF7_p300_Estrogen
MCF7_p300_Vehicle
MCF7_SRC1_Estrogen
MCF7_SRC1_Vehicle
MCF7_SRC2_Estrogen
MCF7_SRC2_Vehicle
MCF7_SRC3_Estrogen
MCF7_SRC3_Vehicle
Ross-Innes, Nature, 2012
"Differential oestrogen receptor binding is associated with clinical outcome in breast cancer."
This paper describes the binding patterns of ER in tumours of varying clinical outcome. The following data files provide the binding loci that are associated with poor and good outcomes, and those which are conserved in both cases.
Poor outcome regions
Good outcome regions
Conserved regions