Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
Input_mESCs
strain
129S4/SvJae
cell line
J1
cell type
Undifferentiated ESCs
chip-antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-enriched DNA was obtaind by using ChIP-IT Express Enzymatic (Active Motif, Cat No. 53009) and anti-H1T rabbit polyclonal antibody The libraries for massive parallel sequencing were prepared with the TruSeq DNA Sample Preparation v2 Kit (Illumina) according to the manufacturer's instructions. Briefly, 50 ng of immunoprecipiated DNA or input DNA were end repaired, 3’ adenylated and ligated with adapter oligos. DNA fragments within the range of 120~500 bp were purified using AMpure XP beads (Beckman Coulter) and amplified by PCR. Library DNA was electrophoresed in 2% agarose gel and subsequently purified with a Zymoclean Gel DNA Recovery Kit (Zymo Reserch). Libraries were quantified by BioAnalyzer2000 (Agilent). Sequencing was performed with Illumina HiSeq 2000 systems

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
9679721
Reads aligned (%)
98.2
Duplicates removed (%)
5.0
Number of peaks
95 (qval < 1E-05)

mm9

Number of total reads
9679721
Reads aligned (%)
98.1
Duplicates removed (%)
5.0
Number of peaks
61 (qval < 1E-05)

Base call quality data from DBCLS SRA