Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
EP300

Cell type

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

Attributes by original data submitter

Sample

source_name
Cranial neural crest cells
individual
1
cell type
Cranial neural crest cells (CNCCs)
cnccs derived from
H9 (ESC)
chip antibody
anti-p300 (Santa Cruz Biotechnology, catalog# sc-585, lot# E3113)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPs were performed using approximately 0.5-1 x 10^7 CNCCs fixed with 1% formaldehyde for 10 min at room temp. RNA was extracted using Trizol. Sequencing libraries were prepared starting from ~30ng of ChIP DNA or oligo-dT purified mRNA using the NEBNext Multiplex Oligos for Illumina kit (Cat# E7335S).

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
21897730
Reads aligned (%)
56.3
Duplicates removed (%)
17.9
Number of peaks
16329 (qval < 1E-05)

hg38

Number of total reads
21897730
Reads aligned (%)
56.7
Duplicates removed (%)
17.7
Number of peaks
16342 (qval < 1E-05)

Base call quality data from DBCLS SRA