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
Mesenchymal stem cell
cell type
Mesenchymal stem cell
genotype
WT hMSCs
passage
P10
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For CNV analysis, the sequencing libraries were constructed via the Next DNA Library Prep Reagent Set for Illumina (NEB). For ATAC-seq, library was amplified and purified using TruePrep DNA Library Prep Kit V2 for Illumina(Vazyme Biotech). For DamID-seq, the DNA library was established via aNEBNext® Ultra™ RNA Library Prep Kit for Illumina® (NEB, USA) following manufacturer's recommendations. For ChIP-seq, the enriched fragments were constructed into libraries without the incorporation of spike-in controls via KAPA Hyper Prep Kits with PCR Library Amplification/Illumina series (KK8504) following the manufacturer's instructions. For RNA-seq, sequencing libraries were generated using NEBNext® Ultra™ RNA Library Prep Kit for Illumina® (NEB, USA) following manufacturer's recommendations.

Sequencing Platform

instrument_model
HiSeq X Ten

hg38

Number of total reads
10877422
Reads aligned (%)
76.0
Duplicates removed (%)
15.3
Number of peaks
420 (qval < 1E-05)

hg19

Number of total reads
10877422
Reads aligned (%)
75.3
Duplicates removed (%)
15.6
Number of peaks
192 (qval < 1E-05)

Base call quality data from DBCLS SRA