Antigen

Antigen Class

Histone

Antigen

H3K4me3

Cell type

Cell type Class

Bone

Cell type

A-673

Primary Tissue

Skeletal Muscle

Tissue Diagnosis

Rhabdomyosarcoma

Sample

source_name

A673

cell line

Ewing sarcoma cell line A673

chip antibody

H3K4me3 (Millipore, 07-473)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Chromatin from formaldehyde-fixed cells (3-10 x 10^6 cells per epitope) was fragmented to a size range of 200 - 700 bases with a Branson 250 Sonifier. Solubilized chromatin was immunoprecipitated with the indicated antibodies and Protein G-Dynabeads (Life Technologies). Immunoprecipitated DNA was extracted with the Mini-Elute PCR purification kit (Qiagen) after crosslink reversal, RNAse A and Proteinase K treatment. ChIP DNA samples were used to generate Illumina sequencing libraries following standard protocols.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

17547125

Reads aligned (%)

99.7

Duplicates removed (%)

1.4

Number of peaks

23070 (qval < 1E-05)

hg19

Number of total reads

17547125

Reads aligned (%)

99.6

Duplicates removed (%)

1.4

Number of peaks

23076 (qval < 1E-05)