Antigen

Antigen Class

TFs and others

Antigen

POU2F1

Cell type

Cell type Class

Breast

Cell type

Mammary gland ductal carcinoma

NA

NA

Sample

source_name

mammary gland ductal carcinoma

parental cell line

T-47D

esr1 genotype

D538G

treatment

None

chip antibody

Anti-OCT1

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Fixation was performed by treating cells with 1% formaldehyde for 10 minutes at room temperature. The cross-linking reaction was stopped with the addition of glycine to a final concentration of 125 mM. Cells were then washed with cold PBS and harvested via cell scraping in Farnham lysis buffer supplemented with protease inhibitors. Chromatin immunoprecipitation was performed as previously described (Reddy et al. Genome Research 2009) with either Anti-FLAG (Sigma-Aldrich M2) antibody that recognizes a FLAG tag on ESR1, Anti-CTCF (sc-5916, Santa Cruz Biotechnology), or Anti-OCT1 (A301-716A and A301-717A, Bethyl Laboratories Inc.) antibodies.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg19

Number of total reads

25128986

Reads aligned (%)

81.1

Duplicates removed (%)

9.0

Number of peaks

16210 (qval < 1E-05)

hg38

Number of total reads

25128986

Reads aligned (%)

83.4

Duplicates removed (%)

7.4

Number of peaks

16346 (qval < 1E-05)