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
mouse embryonic stem cells
treatment
2h with 4OHT
cell line
E14tg2a
background strain
129SV
Stage
embryonic
chip antibody
anti-RBP1 (Active Motif, 39097)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells we fixed in 1% formaldehyde at RT for 10 minutes, nuclei extracted and chromatin sonicated using a bioruptor (10 cycles, 30s on 30s off). Cleared chromatin was incubated with anti-RBP1 antibody (Active Motif, 39097). Input DNA serves as negative control for antibody enrichment. Libraries were prepared using the NEB Next Ultra 2 kit.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
61285602
Reads aligned (%)
97.1
Duplicates removed (%)
34.0
Number of peaks
1920 (qval < 1E-05)

mm9

Number of total reads
61285602
Reads aligned (%)
96.8
Duplicates removed (%)
34.0
Number of peaks
1963 (qval < 1E-05)

Base call quality data from DBCLS SRA