Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMARCA4

Cell type

Cell type Class
Pluripotent stem cell
Cell type
iPS derived neural cells
NA
NA

Attributes by original data submitter

Sample

source_name
Neural stem cells
cell type
CD34+ HSPC-derived iPSC-differentiated NSC
passage
12-15
chip antibody
SMARCA4 ChIP grade (abcam 110641)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation was done as described previously (Ding et al., 2015) using 20 μl of ChIP-grade SMARCA4 (abcam 110641). DNA was fragmented to 200-500bp with a Covaris water-bath sonicator before the IP. DNA was purified and eluted using a PCR purification kit (Qiagen) in 30 μl HPLC-grade water. ChIP-Seq libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
39121479
Reads aligned (%)
87.8
Duplicates removed (%)
9.6
Number of peaks
56725 (qval < 1E-05)

hg38

Number of total reads
39121479
Reads aligned (%)
88.0
Duplicates removed (%)
9.5
Number of peaks
56777 (qval < 1E-05)

Base call quality data from DBCLS SRA