Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Others
Cell type
Mesenchymal stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
BM-derived MSPCs
strain background
C57BL/6
cell type
BM-derived Mesenchymal stem/progenitor cells (MSPCs)
cell type
BM-derived MSPCs
passages
5-10
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
MSPCs were fixed with 1% formaldehyde, lysates were sonicated and the DNA was sheared to an average length of 300 to 500 bp. Histone-DNA complexes were isolated with specific histone modification antibodies. Illumina sequencing libraries were prepared from the ChIP and Input DNAs by the standard consecutive enzymatic steps of end-polishing, dA-addition, and adaptor ligation. After a final PCR amplification step, the resulting DNA libraries were quantified and sequenced.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
35785111
Reads aligned (%)
91.8
Duplicates removed (%)
9.3
Number of peaks
749 (qval < 1E-05)

mm9

Number of total reads
35785111
Reads aligned (%)
91.6
Duplicates removed (%)
9.3
Number of peaks
720 (qval < 1E-05)

Base call quality data from DBCLS SRA