Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PCGF2

Cell type

Cell type Class
Pluripotent stem cell
Cell type
NT2-D1
Tissue
testis
Lineage
inner cell mass
Description
malignant pluripotent embryonal carcinoma (NTera-2), "The NTERA-2 cl.D1 cell line is a pluripotent human testicular embryonal carcinoma cell line derived by cloning the NTERA-2 cell line." - ATCC. (PMID: 6694356)

Attributes by original data submitter

Sample

source_name
Cultured cells
biomaterial_provider
ATCC CRL-1973
cell line
NT2-D1
mutation
none
antibody
anti-MEL18 Abcam #ab77255

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Live cells were crosslinked with 1% formaldehyde for 10 min at 37C and soluble chromatin prepared as described in Schwartz et al., 2006. ChIP was done as described in Schwartz et al., 2006. Libraries were prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina and Multiplex Oligos for Illumina (New England BioLabs) following the manufacturer instructions.

Sequencing Platform

instrument_model
Illumina MiSeq

hg19

Number of total reads
6518534
Reads aligned (%)
74.7
Duplicates removed (%)
18.5
Number of peaks
950 (qval < 1E-05)

hg38

Number of total reads
6518534
Reads aligned (%)
75.8
Duplicates removed (%)
17.7
Number of peaks
924 (qval < 1E-05)

Base call quality data from DBCLS SRA