Antigen

Antigen Class

TFs and others

Antigen

AR

Cell type

Cell type Class

Breast

Cell type

ZR-75-1

Primary Tissue

Breast

Tissue Diagnosis

Adenocarcinoma Ductal

Sample

source_name

ZR-75-1 cell line xenograft tumour

tissue

ZR-75-1 cell line xenograft tumour

treatment

Vehicle

time point

Short-term (5 days treatment)

chip antibody

AR (N-20)X (Santa Cruz SC-816X)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Tumors were cut into 30µm slices on a cryostat and fixed with formaldehyde for 10m prior to quenching. Chromatin was prepared and subsequently sheared by the Diagenode BioRuptor Pico for 8 cycles (30 sec on, 30 sec off) on ice. Sheared chromatin was immunoprecipitated with AR or ERα antibody overnight, after coupling to Protein A Dynabeads (10002D). DNA was purified using phenol:chloroform:isoamyl alcohol extraction. Libraries were prepared according to manufacturer's instructions. ChIP-Seq; Illumina NextSeq 500 (High Output v2) single-end 75 bp reads.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

105209299

Reads aligned (%)

91.5

Duplicates removed (%)

3.0

Number of peaks

2848 (qval < 1E-05)

hg19

Number of total reads

105209299

Reads aligned (%)

90.8

Duplicates removed (%)

4.5

Number of peaks

2330 (qval < 1E-05)