Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXO1

Cell type

Cell type Class
Blood
Cell type
OCI-LY1
NA
NA

Attributes by original data submitter

Sample

source_name
OCI-LY1 cells
growth media
IMDM +10%FBS
treatment
untreated
antibody
FOXO1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cells were cross-linked with 1% formaldehyde, quenched with glycine, washed 2x with PBS. Cells were lysed and nuclei harvested and resuspended in ChIP lysis buffer (25 mM tris, ph 8.0; 150 mM NaCl; 2mM EDTA, 1% Triton x-100; 0.25% SDS; protease inhibitors) prior to sonication on Biorupter (Diagenode). Samples were diluted two times in buffer without SDS and IP carried out with 5 μg antibody for 2 hours and pulled down with 15 μl 1:1 Prot A:Prot G Dynabeads first steps of library construction were carried out on beads including- polishing, A-tailing, P7 adapter ligation, Phi29 nick repair, PNK, lambda exonuclease treatnent, and RecJf nuclease treatment prior to elution and cross-link reversal. Library construction was completed by P7 primer extension and P5 adaptor ligation followed by AMPure purification and library amplification

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
80793062
Reads aligned (%)
12.2
Duplicates removed (%)
83.8
Number of peaks
905 (qval < 1E-05)

hg38

Number of total reads
80793062
Reads aligned (%)
13.6
Duplicates removed (%)
82.2
Number of peaks
1214 (qval < 1E-05)

Base call quality data from DBCLS SRA