Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

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
FASR
cell line
MCF7
cell type
breast cancer cells
resistant phynotype
fulvestrant-resistant
chip antibody
CTCF millipore 07-729

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were purified after formaldehyde crosslinking, collected and resuspended in SDS Lysis buffer before sonication. Chromatin was sonicated to generate a majority of fragments between 200 and 600 bp. 10µg of each antibody was used per ChIP. Libraries for ChIP-Seq were prepared following Illumina protocols. The resulting libraries were sequenced on the Illumina HiSeq 2000 platform configured for 50bp single-end reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
55023455
Reads aligned (%)
78.8
Duplicates removed (%)
19.2
Number of peaks
33586 (qval < 1E-05)

hg38

Number of total reads
55023455
Reads aligned (%)
81.1
Duplicates removed (%)
17.5
Number of peaks
33709 (qval < 1E-05)

Base call quality data from DBCLS SRA