Antigen

Antigen Class

Unclassified

Antigen

Unclassified

Cell type

Cell type Class

Muscle

Cell type

RH-4

NA

NA

Sample

source_name

RH4

cell line

RH4

antibody

anti-PAX3-FOXO1 (made in house)

enrichment target

P3F

condition

Fusion Transcription Factor

target function

shRNA-scramble

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

ChIP samples harvested after 1% formaldehyde fixation for 12 minutes, sonicated, processed and ChIP-enriched via standard protocols (Active Motif ChIP-IT HS kit). ChIP enriched DNA was treated with Proteinase K at 55 ˚C for 30 minutes followed by reversal of crosslinks by heating to 80 ˚C for 2 hours, and DNA purification by column (MiniElute PCR purification kit, Qiagen). DNA was extracted from ChIP-seq samples prepared following the Active Motif ChIP-IT High Sensitivity kit protocol. Standard Illumina barcodes were introduced during library preparation with the Illumina TruSeq ChIP Sample Prep Kit 48 Samples - Set A Cat# IP-202-1012

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

29358538

Reads aligned (%)

94.8

Duplicates removed (%)

9.3

Number of peaks

2061 (qval < 1E-05)

hg19

Number of total reads

29358538

Reads aligned (%)

94.5

Duplicates removed (%)

9.7

Number of peaks

2092 (qval < 1E-05)