Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Epitope tags

Cell type

Cell type Class
Lung
Cell type
HS-SY-II
Primary Tissue
Lung
Tissue Diagnosis
Sarcoma Synovial

Attributes by original data submitter

Sample

source_name
Synovial sarcoma cells
cell line
HSSYII
cell type
SS18-SSX1 fusion protein containing synovial sarcoma cells
passages
<12
treatment
exogenous 3xHA tagged BRD9-N216
chip antibody
HA-tag (CST, 3724S)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone/protein-DNA complexes were isolated using antibodies. Libraries were constructed using the Rubicon Genomics DNA ThruPlex library preparation kit, catalog number R400427, in accordance with the manufacturer's instructions.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
22195449
Reads aligned (%)
87.7
Duplicates removed (%)
5.0
Number of peaks
1122 (qval < 1E-05)

hg19

Number of total reads
22195449
Reads aligned (%)
87.0
Duplicates removed (%)
6.4
Number of peaks
1011 (qval < 1E-05)

Base call quality data from DBCLS SRA