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
CTR d14 rep2
cell line
MCF-7 HTB22 (ATCC)
treatment
CTR
time point
d14

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
5 million cells were formaldehyde-fixed at 1% for 8 minutes, sonicated 14x in BioRuptor Pico and the ChIP against H3K27ac (ab4729, Abcam) was done with the iDeal ChIP-seq kit for histones as per the manufacturer's protocol (Diagenode) Libraries were prepared using the TruSeq ChIP Sample Prep kit and we performed paired-end sequencing with the NextSeq 500/550 High Output Kit v2.5 (150 Cycles) (Illumina)

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
85448096
Reads aligned (%)
98.2
Duplicates removed (%)
52.2
Number of peaks
40028 (qval < 1E-05)

hg19

Number of total reads
85448096
Reads aligned (%)
97.8
Duplicates removed (%)
52.5
Number of peaks
39288 (qval < 1E-05)

Base call quality data from DBCLS SRA