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
cell line
R1 ESC
strain
129SV
genotype
Mll3/4 dCD
antibody
RNA Pol II (Santa Cruz Biotechnology sc-899)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nuclei were extracted and chromatin sonicated to 250-500bp with a Covaris sonicator and IP was performed with antibody as indicated overnight. ChIP DNA, input DNA and cDNA were subject to end repair, A-tailing, adaptor ligation and cleavage with USER enzyme, followed by size selection of 250-500 bp and amplification with NEBNext sequencing primers

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
67519134
Reads aligned (%)
95.8
Duplicates removed (%)
36.7
Number of peaks
32023 (qval < 1E-05)

mm9

Number of total reads
67519134
Reads aligned (%)
95.7
Duplicates removed (%)
36.7
Number of peaks
31991 (qval < 1E-05)

Base call quality data from DBCLS SRA