Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

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

Attributes by original data submitter

Sample

source_name
hiPSC-derived lt-NES
tissue
hiPSC-derived lt-NES
genotype/variation
HA-tag knockin cell
chip-antibody
none

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

hg38

Number of total reads
51967220
Reads aligned (%)
99.3
Duplicates removed (%)
3.9
Number of peaks
1049 (qval < 1E-05)

hg19

Number of total reads
51967220
Reads aligned (%)
98.6
Duplicates removed (%)
4.7
Number of peaks
1141 (qval < 1E-05)

Base call quality data from DBCLS SRA