Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMARCA4

Cell type

Cell type Class
Muscle
Cell type
SYO1
NA
NA

Attributes by original data submitter

Sample

source_name
SYO1 (SS)
cell line
SYO1 (SS)
shRNA
shCt
antibody
anti-BRG1
antibody vendor
homemade, https://www.ncbi.nlm.nih.gov/pubmed/8804307

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

hg19

Number of total reads
23585435
Reads aligned (%)
85.8
Duplicates removed (%)
8.6
Number of peaks
470 (qval < 1E-05)

hg38

Number of total reads
23585435
Reads aligned (%)
88.0
Duplicates removed (%)
7.1
Number of peaks
566 (qval < 1E-05)

Base call quality data from DBCLS SRA