Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CBX5

Cell type

Cell type Class
Breast
Cell type
MCF 10A
Primary Tissue
Breast
Tissue Diagnosis
Fibrocystic Disease

Attributes by original data submitter

Sample

source_name
Human breast cells
cell type
MCF10A
chip antibody
HP1
antibody vendor
Abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Performed with Illumina protocol. 10Ng of inmunoprecipitated DNA was en-repaired, and Illumina double stranded adapters for single read sequencing were ligated to the DNA. After purification of the sample with a MinElute spin column, we size the selected libraries on a 2% agarose gel and fragments corresponding to an insert size range of around 130bp were recovered. The libraries were finally amplified with an 18-cycle PCR reaction, and library quality was confirmed on the Agilent 2100 Bioanalyzer. The samples were loaded at concentrations of 8-11 pm onto Illumina single read flowcells and sequenced on the Illumina Genome Analyzer Iix using a 40 cycles recipe.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
13016651
Reads aligned (%)
85.6
Duplicates removed (%)
6.3
Number of peaks
424 (qval < 1E-05)

hg38

Number of total reads
13016651
Reads aligned (%)
86.2
Duplicates removed (%)
5.4
Number of peaks
204 (qval < 1E-05)

Base call quality data from DBCLS SRA