Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
Differentiated hESCs
NA
NA

Attributes by original data submitter

Sample

source_name
trophoblast progenitors at day 2.5
chip antibody
none
cell line
H9

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared using NEBNext® ChIP-Seq Library Prep kit for Illumina (New England Biolabs, #E6200) according to manufacturer's instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
20336850
Reads aligned (%)
98.6
Duplicates removed (%)
1.7
Number of peaks
1071 (qval < 1E-05)

hg19

Number of total reads
20336850
Reads aligned (%)
97.7
Duplicates removed (%)
3.0
Number of peaks
1096 (qval < 1E-05)

Base call quality data from DBCLS SRA