Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Pcgf1

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 AN3E9
genotype
Rybp-null
treatment
untreated
antibody
Abcam ab202395

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq samples: phenol-chloroform extraction For RNA-Seq samples: RNeasy kit (Qiagen) following the on-column DNase digestion protocol. For ChIP-Seq samples: Libraries were prepared using the NEXTflex ChIP-Seq kit (Bio Scientific) following the “No size-selection cleanup” protocol. For RNA-Seq samples: Total RNA was subjected to mRNA 3ʹ end sequencing library preparation (QuantSeq, Lexogen).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
48221650
Reads aligned (%)
93.8
Duplicates removed (%)
29.2
Number of peaks
650 (qval < 1E-05)

mm9

Number of total reads
48221650
Reads aligned (%)
93.5
Duplicates removed (%)
29.1
Number of peaks
738 (qval < 1E-05)

Base call quality data from DBCLS SRA