Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
JUND

Cell type

Cell type Class
Digestive tract
Cell type
GP5d
Primary Tissue
Colon
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
GP5d
cell line
GP5d
cell type
colon adenocarcinoma
hgn
JUND
antibody
Abcam : ab28837
control sample
GP5dControl_IgG_Rabbit
sirna
Control

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross-linked by 1% formaldehyde, and DNA was sonicated to 200- 400 bp fragments. Antibodies (5 µg) were added and collected using protein G Sepharose (GE). Cross-links were reversed and proteins digested by incubation with proteinase K at 65 °C overnight. DNA was then purified using Qiagen PCR purification kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
12983470
Reads aligned (%)
77.5
Duplicates removed (%)
13.1
Number of peaks
1138 (qval < 1E-05)

hg38

Number of total reads
12983470
Reads aligned (%)
79.0
Duplicates removed (%)
12.3
Number of peaks
1135 (qval < 1E-05)

Base call quality data from DBCLS SRA