Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SS18

Cell type

Cell type Class
Muscle
Cell type
SYO-1
NA
NA

Attributes by original data submitter

Sample

source_name
SYO1 (Synovial Sarcoma)
cell type
Synovial Sarcoma
cell line
SYO1
chip antibody
SS18
antibody manufacturer
CST
antibody catalog number
21792s
antibody lot number
Lot 1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq was performed using standard protocols (Millipore, Billerica, MA). Specifically, cells were fixed in 1% formaldehyde (Sigma Aldrich, F8775) for 10min at 37C and quenched with 125mM glycine for 5min at 37C. After washing, nuclei were sonicated using Covaris Sonicator, and the supernatant was used for immunoprecipitation with the indicated antibody. ChIP-sequencing libraries were prepared with the Rubicon Thruplex DNAseq prep kit using standard protocols.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
52043986
Reads aligned (%)
83.4
Duplicates removed (%)
13.7
Number of peaks
22834 (qval < 1E-05)

hg38

Number of total reads
52043986
Reads aligned (%)
85.1
Duplicates removed (%)
12.6
Number of peaks
22868 (qval < 1E-05)

Base call quality data from DBCLS SRA