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
Embryonic Stem Cells
chip antibody
Total PolII, (sc-899, Santa Cruz Biotechnology)
treatment
Trim28 siRNA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ES cells were crosslinked with formaldehyde and lysed. Chromatin was sonicated, and ChIP was performed as described in the manuscript. Libraries were constructed using the SPRI-TE Nucleic Acid Extractor (Beckman Coulter, Indianapolis, IN) with a size selection of 200-400bp

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
17362480
Reads aligned (%)
95.3
Duplicates removed (%)
27.7
Number of peaks
9958 (qval < 1E-05)

mm9

Number of total reads
17362480
Reads aligned (%)
95.0
Duplicates removed (%)
27.8
Number of peaks
9920 (qval < 1E-05)

Base call quality data from DBCLS SRA