Antigen

Antigen Class

TFs and others

Antigen

ESR1

Cell type

Cell type Class

Breast

Cell type

MCF-7

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

MCF7

cell type

Breast cancer

passages

22

chip antibody

ab3575 (abcam)/06-935 (Millipore)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were crosslinked with 2mM DSG for 20 min followed by crosslinking in 1% formaldehyde for 10 min and then quenched in 100mM glycine. Nuclear enrichment was performed followed by sonication for 15 minutes (Bioruptor plus, Diagenode). Chromatin was immunoprecipitated over night using specific antibodies. Beads were washed six times in RIPA buffer and eluted from beads using SDS buffer. After RNase and proteinase K treatment, DNA was purified by phenol/chloroform extraction. Libraries were prepared using the Thruplex kit (Illumina) according to the manufacturer's instructions.

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg19

Number of total reads

31764524

Reads aligned (%)

98.9

Duplicates removed (%)

14.5

Number of peaks

39983 (qval < 1E-05)

hg38

Number of total reads

31764524

Reads aligned (%)

99.3

Duplicates removed (%)

14.1

Number of peaks

40032 (qval < 1E-05)