Antigen

Antigen Class

RNA polymerase

Antigen

RNA polymerase II

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/variation

shCTRL

chip antibody

POLII, Santa Cruz sc-9001x, lot # E3012

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For RNA seq, total RNA was extracted using QiaGen RNAplus kit. ChIP-seq were performed following the protocol: Using ChIP-seq technology to generate high-resolution profiles of histone modifications. O'Geen H, Echipare L, Farnham PJ. Methods Mol Biol. 2011;791:265-86. doi: 10.1007/978-1-61779-316-5_20. Library was contracted by the MD Anderson DNA sequencing Core facility following standard protocol.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

29329328

Reads aligned (%)

97.8

Duplicates removed (%)

16.3

Number of peaks

13608 (qval < 1E-05)

hg19

Number of total reads

29329328

Reads aligned (%)

96.9

Duplicates removed (%)

18.2

Number of peaks

13686 (qval < 1E-05)