Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TET2

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
human colorectal cancer cell line
fraction
TET2_bound
antibody
anti TET2 (SantaCruz, catalog# sc-136926, lot# H2412)
cell line
HCT116 colorectal cancer cell line

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For hmeDIP-seq, Illumina libraries were prepared from sonicated genomic DNA followed by immunoprecipitation with anti-5hmC antibody (Active Motif, 39791) and sequenced. For TET2 ChIP-seq, formaldehyde cross-linked material was immunoprecipitated with anti-TET2 antibody (SantaCruz sc-136926) followed by Illumina adapter ligation and sequencing.

Sequencing Platform

instrument_model
Illumina HiScanSQ

hg19

Number of total reads
95678446
Reads aligned (%)
20.8
Duplicates removed (%)
71.2
Number of peaks
1580 (qval < 1E-05)

hg38

Number of total reads
95678446
Reads aligned (%)
22.4
Duplicates removed (%)
69.2
Number of peaks
1638 (qval < 1E-05)

Base call quality data from DBCLS SRA