Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

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
cell type
ER+/PR+
target protein
ChIP-PR
pre treatment
Untreated
pre treatment time
0
treatment
Untreated
treatment time
0
sequencing core
CRG
send for sequencing on
11/3/2015
sequencing index
ACAGTG
illumina machine
Illumina HiSeq 2000
application
ChIP-seq
read length
50
sequencing type
SE
library type
Unknown

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
In Situ Hi-C was performed according previously described protocol (Rao et al., 2014) with some modifications (Le Dily et al., 2017). Paired-end libraries were generated with Truseq adaptors (Illumina) according previously published Hi-C protocols (Rao et al., 2014).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
44774625
Reads aligned (%)
97.8
Duplicates removed (%)
26.7
Number of peaks
1531 (qval < 1E-05)

hg19

Number of total reads
44774625
Reads aligned (%)
96.6
Duplicates removed (%)
29.9
Number of peaks
1263 (qval < 1E-05)

Base call quality data from DBCLS SRA