Antigen

Antigen Class

TFs and others

Antigen

SOX2

Cell type

Cell type Class

Gonad

Cell type

N2102Ep

NA

NA

Sample

source_name

Human testicular germ cell tumour cell line

cell line

2102EP

cell type

Embryonal carcinoma-like cells

chip antibody

Anti-SOX2

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For chromatin preparation of cell lines, 1 x 10e7 cells / immunoprecipitation were fixed for 30 minutes (min) at room temperature (RT) using Diagenode Crosslink Gold (Diagenode, Liège, Belgium). After two washing steps with PBS (Thermo Fisher Scientific) cells were additionally fixed for 10 min in 1% formaldehyde (Applichem, Darmstadt, Germany) and then processed according to the SimpleChIP® Plus Enzymatic Chromatin IP Kit (Cell Signaling Technology, Leiden, Netherlands). ChIP-seq libraries were generated using the MicroPlex Library Preparation Kit v2 (Diagenode).

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

35056570

Reads aligned (%)

91.2

Duplicates removed (%)

11.8

Number of peaks

29333 (qval < 1E-05)

hg19

Number of total reads

35056570

Reads aligned (%)

90.5

Duplicates removed (%)

12.8

Number of peaks

29126 (qval < 1E-05)