Sample information curated by ChIP-Atlas

Antigen

Antigen Class
RNA polymerase
Antigen
RNA polymerase II

Cell type

Cell type Class
Blood
Cell type
B cells
NA
NA

Attributes by original data submitter

Sample

source_name
primary activated splenic B lymphocytes
antibody
RNA Pol II (Ser5-phospho)
cell type
Rosa26ERT2-cre/+ primary B cells
treatment
4-hydroxy tamoxifen (4-HT)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIPseq and ChIP-qPCR were performed as described without modifications (Pavri et al., 2010). In short, 20x10^6 cells were crosslinked with 1% HCHO for 10 min at 37 degree. After quenching with 0,125 M glycine, cells were sonicated with the Diagenode Bioruptor sonication machine. After chromatin-immunprecipitation, samples were end-repaired with the Epicenter End-Repair Kit. After A-tailing the samples with Klenow (exo-) enzyme, NEXTflex adapters were ligated to the samples and then purified with AMPure XP beads. PCR amplification of the libraries was performed with the Phusion-HF enzyme and the NEXTflex primer mix.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
38518030
Reads aligned (%)
74.0
Duplicates removed (%)
10.4
Number of peaks
16615 (qval < 1E-05)

mm9

Number of total reads
38518030
Reads aligned (%)
73.8
Duplicates removed (%)
10.5
Number of peaks
16588 (qval < 1E-05)

Base call quality data from DBCLS SRA