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 (Santa Cruz Biotechnology sc-200, Lot No. C0513)

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

hg19

Number of total reads
27398384
Reads aligned (%)
86.6
Duplicates removed (%)
10.6
Number of peaks
13063 (qval < 1E-05)

hg38

Number of total reads
27398384
Reads aligned (%)
88.3
Duplicates removed (%)
9.6
Number of peaks
13041 (qval < 1E-05)

Base call quality data from DBCLS SRA