Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TCF7L2

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
HNF4a2 Line
cell line
HCT116
cell type
colon cancer
passages
20-26
treatment
0.3 µg/mL DOX
length of treatment
24 hours
antibody
anti-TCF7L2 (TCF4) (Millipore; cat# 6H5-3)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Formaldehyde cross-linking and chromatin immunoprecipiation was performed as described in Hwang-Verslues et al., 2008 (Mol Endo 22:78-90) and Li AG et al., 2007 (Mol. Cell 28:408-421) with some modification. Illumina-compatible NEXTflex ChIPseq Kit (Bioo Scientific) was used to generate libraries from purified ChIP DNA for sequencing in the Illumina's HiSeq2000. Illumina HiSeq2000 was used to sequence the libraries (50bp, single-end)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
28199010
Reads aligned (%)
47.4
Duplicates removed (%)
50.5
Number of peaks
1225 (qval < 1E-05)

hg38

Number of total reads
28199010
Reads aligned (%)
48.7
Duplicates removed (%)
49.4
Number of peaks
1163 (qval < 1E-05)

Base call quality data from DBCLS SRA