Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CHD7

Cell type

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

Attributes by original data submitter

Sample

source_name
hiPSC-derived lt-NES
tissue
hiPSC-derived lt-NES
genotype/variation
wild type
chip-antibody
CHD7 (CST, #6505, clone D3F5)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For single fixation with formaldehyde, cells were fixed with 1% formaldehyde-containing medium for 10 min. For double fixation, the cells were first fixed with 2 mM EGS for 30 min followed by with 1% formaldehyde-containing medium for 10 min. Libraries were prepared using KAPA Hyperprep Kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
29854691
Reads aligned (%)
61.9
Duplicates removed (%)
36.6
Number of peaks
11350 (qval < 1E-05)

hg38

Number of total reads
29854691
Reads aligned (%)
63.7
Duplicates removed (%)
35.4
Number of peaks
11267 (qval < 1E-05)

Base call quality data from DBCLS SRA