Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRF1

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H9
NA
NA

Attributes by original data submitter

Sample

source_name
H9 ESCs
antibody
TFIIIB Bethyl #A301-228A

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed using 1% formaldehyde cross-linking for 10 minutes at room temperature. Cells were lysed with 1X PBS in RIPA buffer and sonicated for 30 minutes in a biorupter on high with 50s "on" cycles followed by 10s "off". Chromatin lysate was cleared with a 1 minue high speed spin and incubated with antibody overnight at 4o. Libraries for high-throughput sequencing on Illumina Hi-seq were generated using TruSeq library preparation protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
26743360
Reads aligned (%)
22.9
Duplicates removed (%)
62.0
Number of peaks
776 (qval < 1E-05)

hg38

Number of total reads
26743360
Reads aligned (%)
23.6
Duplicates removed (%)
61.2
Number of peaks
735 (qval < 1E-05)

Base call quality data from DBCLS SRA