Antigen

Antigen Class

TFs and others

Antigen

MYOD1

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

MyoD, Santa Cruz (cat sc-32758, lot I1113)

enrichment target

MYOD1

target function

Myogenic Transcription Factor

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

41650660

Reads aligned (%)

94.8

Duplicates removed (%)

29.5

Number of peaks

36681 (qval < 1E-05)

hg19

Number of total reads

41650660

Reads aligned (%)

94.6

Duplicates removed (%)

29.9

Number of peaks

36599 (qval < 1E-05)