Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CHD8

Cell type

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

Attributes by original data submitter

Sample

source_name
Neurons
cell type
ES-derived neuron
differentiation time
3 weeks
genotype/variation
WT
chip-antibody
Anti CHD8 : Rabbit-Bethyl lab-A301-224A

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Extract protocol for ChIP-seq, RNA-seq and ATAC-seq are according to "method" section in the manuscript. RNA and ChIP libraries were prepared for sequencing using standard Illumina protocols. ATAC : we followed the cited protocol in the method section: Chen, X. et al. Joint single-cell DNA accessibility and protein epitope profiling reveals environmental regulation of epigenomic heterogeneity. Nature communications 9, 4590, doi:10.1038/s41467-018-07115-y (2018).

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
35073811
Reads aligned (%)
59.0
Duplicates removed (%)
6.4
Number of peaks
500 (qval < 1E-05)

hg38

Number of total reads
35073811
Reads aligned (%)
60.2
Duplicates removed (%)
5.4
Number of peaks
853 (qval < 1E-05)

Base call quality data from DBCLS SRA