Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

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

Attributes by original data submitter

Sample

source_name
ChIPseq_Input_day3_SSEA1+
strain
rtTA3-OKSM-Oct4GFP
genotype
het-het-het
cell type
day3 MEF reprogramming intermediates
chip antibody
Input

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. Libraries were prepared using the ThruPLEX DNA-seq 12S kit (Rubicon Genomics, R400429). After PCR amplification, libraries were purified using Agencourt AMPure XP beads (Beckman Coulter, Cat. No. A63880).

Sequencing Platform

instrument_model
Illumina HiSeq 1500

mm10

Number of total reads
26021481
Reads aligned (%)
90.8
Duplicates removed (%)
18.0
Number of peaks
258 (qval < 1E-05)

mm9

Number of total reads
26021481
Reads aligned (%)
90.6
Duplicates removed (%)
18.1
Number of peaks
197 (qval < 1E-05)

Base call quality data from DBCLS SRA