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
Embryonic Stem cells
genotype
BAF250a Knockout
strain
129/C57BL/6
antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ESCs were fixed in 1% Formaldehype 10 minutes at room temperature. Nuclei were isolated and treated with micrococal nuclease followed with brief sonication. Input DNA was purified, end repaired, dA tailing and ligated to illumina sequencing primers. ChIP DNA was size selected and amplified then sequenced on HiSeq 2000 to generate 50 bp reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
18318663
Reads aligned (%)
90.9
Duplicates removed (%)
15.2
Number of peaks
441 (qval < 1E-05)

mm9

Number of total reads
18318663
Reads aligned (%)
90.8
Duplicates removed (%)
15.2
Number of peaks
414 (qval < 1E-05)

Base call quality data from DBCLS SRA