Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

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 line1
cell type
embryonic stem cell
treatment
Input control in embryonic stem cell line1 36h following Gata6 induction

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Immunoprecipitation was performed on 1-2 x107 cells as described (Vokes et al., 2007) no primary antibody control. Sonication was performed using a Misonix 4000 (28 cycles: 15 seconds on and 45 seconds off at an intensity of 70%) with a Microtip Probe (Misonix, Farmingdale, NY). Indexed libraries were prepared using the Illumina TruSeq ChIP Sample Preparation Kit according to the standard protocol. The libraries were sequenced on an Illumina HiSeq2000 with 50bp paired-end reads.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
31391013
Reads aligned (%)
98.3
Duplicates removed (%)
10.4
Number of peaks
347 (qval < 1E-05)

mm9

Number of total reads
31391013
Reads aligned (%)
98.2
Duplicates removed (%)
10.9
Number of peaks
307 (qval < 1E-05)

Base call quality data from DBCLS SRA