Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ETS1

Cell type

Cell type Class
Others
Cell type
SCC-25
Primary Tissue
Tongue
Tissue Diagnosis
Carcinoma Squamous Cell

Attributes by original data submitter

Sample

source_name
SCC25
cell line
SCC25
antibody
C20 (Santa Cruz) antibodies for ETS1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was extracted from Mesenchymal HNSCC Cell Line (SCC25) using a low SDS shearing kit (Diagenode: C01020010). Lysates were sonicated with a Bioruptor for 30-40 min. IPs were carried out using the Active-Motif High Sensitivity ChIP Kit using the C20 (Santa Cruz) and 501A (Bethyl Labs) antibodies for ETS1. Libraries were prepared using ThruPLEX DNA-seq kits from Rubicon Genomics. The samples were then 50 bp single-end sequenced on an Illumina HiSeq 2500.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
17501817
Reads aligned (%)
47.6
Duplicates removed (%)
51.1
Number of peaks
8547 (qval < 1E-05)

hg38

Number of total reads
17501817
Reads aligned (%)
47.8
Duplicates removed (%)
50.9
Number of peaks
8557 (qval < 1E-05)

Base call quality data from DBCLS SRA