Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Cardiovascular
Cell type
Umbilical cord-derived mesenchymal stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
umbilical cord derived mesenchymal stem cells (UC-MSC)
gender
female
phenotype
Normal
fat differentiation cycle
pooled
antibody
NA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Approximately 5 million cells from each cell line were cross-linked with 1% formaldehyde for 15 min and excess formaldehyde quenched by addition of glycine (0.625 M). Nuclei were prepared and collected for sonication in 1% SDS-buffer DNA was enrepaired, followed by "A" attachment, adapter ligation and 15 cycles of PCR with multiplex primers. Size selection was performed with 1.5% low melting agarose gels.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
48916723
Reads aligned (%)
94.9
Duplicates removed (%)
3.1
Number of peaks
1114 (qval < 1E-05)

hg19

Number of total reads
48916723
Reads aligned (%)
93.9
Duplicates removed (%)
4.9
Number of peaks
1264 (qval < 1E-05)

Base call quality data from DBCLS SRA