Antigen

Antigen Class

Histone

Antigen

H3K4me1

Cell type

Cell type Class

Muscle

Cell type

Rhabdomyosarcoma

MeSH Description

A malignant solid tumor arising from mesenchymal tissues which normally differentiate to form striated muscle. It can occur in a wide variety of sites. It is divided into four distinct types: pleomorphic, predominantly in male adults; alveolar (RHABDOMYOSARCOMA, ALVEOLAR), mainly in adolescents and young adults; embryonal (RHABDOMYOSARCOMA, EMBRYONAL), predominantly in infants and children; and botryoidal, also in young children. It is one of the most frequently occurring soft tissue sarcomas and the most common in children under 15. (From Dorland, 27th ed; Holland et al., Cancer Medicine, 3d ed, p2186; DeVita Jr et al., Cancer: Principles & Practice of Oncology, 3d ed, pp1647-9)

Sample

source_name

RMS cell line, mutant HRAS

antibody

H3K4me1, Active Motif (cat39141, lot01008001 pAb)

enrichment target

H3K4me1

target function

Poised enhancers and promoters

time

48 hr

treatment

DMSO

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

DNA was extracted from ChIP-seq samples prepared following the Active Motif ChIP-IT High Sensitivity kit protocol. DNase DNA purification was performed by column (MiniElute PCR purification kit, Qiagen). Standard Illumina barcodes were introduced during library preparation ChIP-seq and DNase-seq

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

13776306

Reads aligned (%)

97.3

Duplicates removed (%)

6.6

Number of peaks

11251 (qval < 1E-05)

hg19

Number of total reads

13776306

Reads aligned (%)

97.0

Duplicates removed (%)

6.8

Number of peaks

11251 (qval < 1E-05)