Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
Prdm4-EGFP_ESCs_B6_mIgG_ChIP
strain background
129/Sv
cell line
CCE
cell type
mouse embryonic stem cells
genotype/variation
expressing Prdm4-EGFP
chip antibody
normal mouse IgG
chip antibody vendor
Santa Cruz

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were precleared with Protein G Dynabeads. Complexes were then isolated with 6µg anti-GFP monoclonal antibody (Invitrogen A11120, clone 3E6, IgG2a) or control Mouse IgG (Santa Cruz sc-2025, Mouse IgG) linked to Protein G Dynabeads. Sequencing libraries were then prepared using the Illumina ChIP-seq DNA Sample Prep Kit. Libraries were size selected at ~200bp and four libraries were multiplexed per lane on a HiSeq 2000.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
44998695
Reads aligned (%)
97.8
Duplicates removed (%)
41.7
Number of peaks
323 (qval < 1E-05)

mm9

Number of total reads
44998695
Reads aligned (%)
97.7
Duplicates removed (%)
42.3
Number of peaks
313 (qval < 1E-05)

Base call quality data from DBCLS SRA