Curated Sample Data


Genome
hg19
Antigen Class
TFs and others
Antigen
CTCF
Cell type Class
Muscle
Cell type
SYO-1

Cell type information


NA
NA

Attributes by Original Data Submitter


source_name
SYO1 (Synovial Sarcoma)
cell type
Synovial Sarcoma
cell line
SYO1
chip antibody
CTCF
antibody manufacturer
CST
antibody catalog number
3418S
antibody lot number
Lot 3

Metadata from Sequence Read Archive

Library Description


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.

Platform Information


instrument_model
NextSeq 500

External Database Query

Logs in read processing pipeline


Number of total reads
50839866
Reads aligned (%)
96.9
Duplicates removed (%)
34.1
Number of peaks
73031 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA