Curated Sample Data


Genome
mm9
Antigen Class
Histone
Antigen
H3R26cit
Cell type Class
Pluripotent stem cell
Cell type
Embryonic Stem Cells

Cell type information


MeSH Description
Cells derived from the BLASTOCYST INNER CELL MASS which forms before implantation in the uterine wall. They retain the ability to divide, proliferate and provide progenitor cells that can differentiate into specialized cells.

Attributes by Original Data Submitter


source_name
Embryonic stem cells
cell type
Embryonic stem cells
cell line
E14
treatment
none
chip antibody
H3R26Cit antibody (ab19847)

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were scraped off dishes and collected by centrifuge. Cross-linked chromatin complexes were isolated from the Nuclei lysis buffer and then sonicated to obtain fragments in a size range between 350-500bp. H3R26Cit antibody (ab19847) were incubated with solubilized DNA fragments overnight at 4°C. Protein A/G agarose beads (Pierce, Rockford, IL) were used to capture the antibody-chromatin complex followed by washes and elution with 1% SDS. The DNA was recovered by reversing the cross-links with 20 mM NaCl at 65°C overnight. DNA was purified by QIAquick PCR Purification Kit (Qiagen 28106) and dissolving in a final volume of 30ul per immunoprecipitation. The Protocol of KAPA High-Throughput Library Preparation Kit (Cat. No. KK8234)

Platform Information


instrument_model
Illumina HiSeq 2500

External Database Query

Logs in read processing pipeline


Number of total reads
5222392
Reads aligned (%)
98.1
Duplicates removed (%)
6.5
Number of peaks
71 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA