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
ES cells
genotype
wild-type
chip antibody
none (input)
cell type
embryonic stem cells

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
To isolate chromatin, formaldehyde-cross-linked nuclei were sonicated using a Branson 450 Sonifier (Branson, Danbury, CT). Following ChIP performed with Dynal beads (Invitrogen, Carlsbad, CA), ChIP DNA was subjected to end repair, A-tailing, adaptor ligation, and gel purification. Following PCR amplification, the final library underwent gel purification.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
33917672
Reads aligned (%)
94.9
Duplicates removed (%)
10.7
Number of peaks
514 (qval < 1E-05)

mm9

Number of total reads
33917672
Reads aligned (%)
94.7
Duplicates removed (%)
10.7
Number of peaks
537 (qval < 1E-05)

Base call quality data from DBCLS SRA