Antigen

Antigen Class

TFs and others

Antigen

ZMYND11

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

shZMYND11

chip antibody

ZMYND11, home-made

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

hg19

Number of total reads

73288544

Reads aligned (%)

92.7

Duplicates removed (%)

14.9

Number of peaks

1451 (qval < 1E-05)

hg38

Number of total reads

73288544

Reads aligned (%)

93.7

Duplicates removed (%)

12.9

Number of peaks

1462 (qval < 1E-05)