Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Others
Cell type
Mesenchymal stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
Mesenchymal stem cell
cell type
Mesenchymal stem cell
genotype/variation
WT
chip antibody
H3K4me3 (Abcam, ab8580)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Sequencing libraries were constructed by TruSeq DNA Sample Preparation Kit (Illumina, #FC-121-2001) according to the manufacturer’s manuals.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
9483095
Reads aligned (%)
98.1
Duplicates removed (%)
7.3
Number of peaks
11736 (qval < 1E-05)

hg19

Number of total reads
9483095
Reads aligned (%)
96.4
Duplicates removed (%)
7.8
Number of peaks
11242 (qval < 1E-05)

Base call quality data from DBCLS SRA