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
mouse embryonic stem cell
cell type
mouse embryonic stem cells E14
chip-antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and DNA complexes were isolated with antibody. 5-10 ng of ChIP DNA was used for generation of libraries for deep-sequencing using the NEXTflex™ ChIP-Seq Kit. Briefly, the DNA was end-repaired following adding an A-base to the end-repaired DNA fragments. Illumina adaptors (regular or multiplex) were ligated to the ChIP DNA fragments and 100-300 bp of size fractions were excised from 2% agarose gel. Adaptor-modified fragments library prep was validated in Bioanalyzer for quantity and size before putting into sequencing (The Beijing Genomics Institute, BGI).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
21078731
Reads aligned (%)
97.9
Duplicates removed (%)
11.8
Number of peaks
371 (qval < 1E-05)

mm9

Number of total reads
21078731
Reads aligned (%)
97.7
Duplicates removed (%)
11.9
Number of peaks
383 (qval < 1E-05)

Base call quality data from DBCLS SRA