Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Breast

Cell type

MCF-7

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

MCF7 cells

cell line

MCF7 (HTB-22)

treatment

PTEN knock-down

chip antibody

n/a

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Chromatin was immunoprecipitated using RNA Pol II antibody, washed, reverse-crosslinked, and DNA isolated using the phenol-chloroform method. Input DNA isolated using the phenol-chloroform method. 10ng precipitated DNA was used to prepare library using Illumina TruSeq ChIP library preparation kit.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

7510223

Reads aligned (%)

98.3

Duplicates removed (%)

1.4

Number of peaks

141 (qval < 1E-05)

hg19

Number of total reads

7510223

Reads aligned (%)

97.2

Duplicates removed (%)

1.4

Number of peaks

124 (qval < 1E-05)