Data

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

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

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