Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H9
NA
NA

Attributes by original data submitter

Sample

source_name
H9 hESC
cell line
H9
chip antibody
Mouse IgG (Millipore #12-371)
passage
58-60
treatment
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Formaldehyde cross-linked nuclei were sonicated and IgG was purified using indicated antibody and protein A beads. Immunopurified DNA was reverse-cross-linked, phenol:chloroform extracted and ethanol precipitated. Library was constructed using Illuina Tru-seq branched adapters and subjected to 25 PCR cycles

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
13412437
Reads aligned (%)
77.1
Duplicates removed (%)
20.0
Number of peaks
122 (qval < 1E-05)

hg19

Number of total reads
13412437
Reads aligned (%)
76.6
Duplicates removed (%)
20.3
Number of peaks
278 (qval < 1E-05)

Base call quality data from DBCLS SRA