Antigen

Antigen Class

TFs and others

Antigen

CTCF

Cell type

Cell type Class

Bone

Cell type

U2OS

Tissue

bone

Lineage

mesoderm

Description

osteosarcoma from the tibia of a 15 year old, J. Ponten and E. Saksela derived this line (originally 2T) in 1964 from a moderately differentiated sarcoma, viruses were not detected during co-cultivation with WI-38 cells or in CF tests against SV40, RSV or adenoviruses, mycoplasma contamination was detected and eliminated in 1972, (PMID: 6081590)

Sample

source_name

U2OS cells

cell type

U2OS cells

genotype

NAT10 knockdown

treatment

untreated

antibody

CTCF

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and NAT10-DNA or CTCF-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg38

Number of total reads

32837395

Reads aligned (%)

82.0

Duplicates removed (%)

19.0

Number of peaks

10044 (qval < 1E-05)

hg19

Number of total reads

32837395

Reads aligned (%)

81.4

Duplicates removed (%)

19.4

Number of peaks

9082 (qval < 1E-05)