Sample information curated by ChIP-Atlas

Antigen

Antigen Class
RNA polymerase
Antigen
RNA polymerase II

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
cell line
cell line
J1
antibody
Pol 2
transfection
lentiviral mediated-shRNA against non-targeting Ino80

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed with 1% formaldehyde, sonicated and precipitated by Ino80, Oct4, Klf4, Med1, or Pol2 antibodies. Then precipitated DNA was reverse crosslinked, extracted and quantified for library. Library was prepared by TruSeq DNA Sample Prep kit (Illumina) or Nextera XT DNA sample prep kit (Illumina) according to the manufacturer's protocol.

Sequencing Platform

instrument_model
Illumina MiSeq

mm10

Number of total reads
6506012
Reads aligned (%)
94.7
Duplicates removed (%)
15.8
Number of peaks
462 (qval < 1E-05)

mm9

Number of total reads
6506012
Reads aligned (%)
94.5
Duplicates removed (%)
15.9
Number of peaks
478 (qval < 1E-05)

Base call quality data from DBCLS SRA