Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ATF4

Cell type

Cell type Class
Blood
Cell type
HAP1
NA
NA

Attributes by original data submitter

Sample

source_name
HAP1, 2 mM histidinol for 24 hours, ATF4 ChIP
cell line
HAP1
treatment
2 mM histidinol, 24 hours
chip antibody
ATF4 (Cell Signaling Technology, D4B8, Cat. No. 11815, Lot No. 2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed with 1% formaldehyde and lysed. Chromatin was sheared to an average fragment size of 200 bp using a Covaris S2 ultrasonicator. ATF4-DNA complexes were isolated with antibody and Dynabeads. ChIP-Seq libraries were prepared using the NEBNext Ultra DNA Library Prep Kit for Illumina (New England Biolabs), including optional size selection of adapter-ligated DNA and 13 cycles of PCR amplification. Libraries were sequenced on a GAIIx Genome Analyzer (Illumina).

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg38

Number of total reads
28202309
Reads aligned (%)
98.2
Duplicates removed (%)
6.6
Number of peaks
25189 (qval < 1E-05)

hg19

Number of total reads
28202309
Reads aligned (%)
97.5
Duplicates removed (%)
7.5
Number of peaks
25203 (qval < 1E-05)

Base call quality data from DBCLS SRA