Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CBX1

Cell type

Cell type Class
Digestive tract
Cell type
DKO
NA
NA

Attributes by original data submitter

Sample

source_name
DKO_ChIPseq_HP1beta
cell line
DKO
cell type
colon cancer cell line
cell line source gender
male
library strategy
ChIP-seq
chip antibody
anti-HP1beta (CST:8676S)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were grown to ~75% confluency, harvested with trypsin, washed in 1X PBS, and frozen/stored at -80°C. Thawed cells were fixed in 1% formaldehyde and quenched in 0.125M Glycine, then washed twice in 1X PBS. Fixed cells were then resuspended in 500ul lysis buffer (50mM Tris-HCl pH 8.0, 10mM NaCl, 0.2% NP40, 1X PITC) for 30 min on ice with periodic resuspension. Libraries were prepared using NEB UltraII DNA library kit

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
50571146
Reads aligned (%)
180.5
Duplicates removed (%)
4.8
Number of peaks
621 (qval < 1E-05)

hg38

Number of total reads
50571146
Reads aligned (%)
188.1
Duplicates removed (%)
3.0
Number of peaks
2044 (qval < 1E-05)

Base call quality data from DBCLS SRA