Sample information curated by ChIP-Atlas

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

Attributes by original data submitter

Sample

source_name
MCF7 cells
cell type
metastatic ER+ breast cancer
antibody
ER antibody (Santa Cruz HC-20)
cell line
MCF7
knockdown
shKMT2C

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared using 5ng of DNA and KAPA Hyper Prep Kit for Illumina, according to the manufacturer’s protocol. Libraries were validated using the Agilent 2200 Tapestation and KAPA library quantification qPCR assay

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
48885446
Reads aligned (%)
110.9
Duplicates removed (%)
42.9
Number of peaks
27908 (qval < 1E-05)

hg38

Number of total reads
48885446
Reads aligned (%)
112.8
Duplicates removed (%)
42.3
Number of peaks
28387 (qval < 1E-05)

Base call quality data from DBCLS SRA