Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NUP98

Cell type

Cell type Class
Lung
Cell type
IMR-90
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
IMR90, Nup98 ChIP
cell line
IMR90
cell type
lung fibroblasts
chip antibody
Nup98 (Cell Signaling #2292 )

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% formaldehyde (Polysciences) for 10min. Fixation was stopped by adding glycine to a final concentration of 125mM. Fixed cells were lysed and sonicated. DNA was immunoprecipitated, eluted, de-crosslinked, treated with RNase and protease, and purified. Library was constructed using Illumina ChIP-Seq DNA sample prep kit and sequencing was done on Illumina GAII.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg19

Number of total reads
28890517
Reads aligned (%)
94.2
Duplicates removed (%)
3.7
Number of peaks
1265 (qval < 1E-05)

hg38

Number of total reads
28890517
Reads aligned (%)
96.6
Duplicates removed (%)
2.2
Number of peaks
1260 (qval < 1E-05)

Base call quality data from DBCLS SRA