Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Others

Cell type

Fibroblasts

NA

NA

Sample

source_name

CRL7250 (fibroblast)

cell line

CRL7250 (fibroblast)

shRNA

SS18-SSX1

antibody

none, input

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Chromatin immunoprecipitation (ChIP) experiments were performed per standard protocols (Millipore, Billerica, MA) with minor modifications. Briefly, 10M cells were crosslinked with 1% formaldehyde for 10 min at 37 °C. This reaction was subsequently quenched with 0.125M glycine. All library prep and sequencing were 75bp single end on Illuminia Nextseq 500

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

41608615

Reads aligned (%)

97.8

Duplicates removed (%)

6.3

Number of peaks

1100 (qval < 1E-05)

hg19

Number of total reads

41608615

Reads aligned (%)

96.9

Duplicates removed (%)

7.3

Number of peaks

928 (qval < 1E-05)