Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

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

protocol

ATAC-seq

enzyme

Transposase-Tn5

cell type

Bone

cell line

U2OS with H2B-GFP and Halo tagged CTCF received from Anders Hansen in Xavier Darzacq lab in Berkeley

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

For each ATAC-seq library, 50,000 cells or the equivalent in mitotic chromatin clusters were used ATAC-seq was performed according to published protocol (Buenrostro et al, Curr. Protoc. Mol. Bio, 2015)

Sequencing Platform

instrument_model

Illumina HiSeq 4000

hg38

Number of total reads

37762373

Reads aligned (%)

92.2

Duplicates removed (%)

66.6

Number of peaks

4208 (qval < 1E-05)

hg19

Number of total reads

37762373

Reads aligned (%)

91.9

Duplicates removed (%)

67.0

Number of peaks

4114 (qval < 1E-05)