Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Bone
Cell type
MC3T3
NA
NA

Attributes by original data submitter

Sample

source_name
5uM_GSK126_Input_DNA
cell line
MC3T3 cells
treatment
GSK126
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA (RNA-Seq) was isolated using the miRNeasy mini kit (Catalog # 217004, Qiagen). DNA (ChIP-Seq) was isolated from ChIP assays with the use of Phenol: Chloroform: Isoamyl Alcohol (25:24:1 v/v) solution (Invitrogen, Catalog 15593-031). The DNA was then precipitated overnight using 0.3M sodium acetate in the presence of 20µg of glycogen in 70% ethanol. The DNA was then spun down, washed with 70% ethanol, and dissolved in 50µl of water. RNA-Seq libraries were prepared using the Illumina TruSeq v2 mRNA protocol. ChIP-Seq libraries were prepared using the NEBNext ChIP-Seq Library prep kit for Illumina sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
42537649
Reads aligned (%)
94.6
Duplicates removed (%)
25.6
Number of peaks
203 (qval < 1E-05)

mm9

Number of total reads
42537649
Reads aligned (%)
94.4
Duplicates removed (%)
26.3
Number of peaks
208 (qval < 1E-05)

Base call quality data from DBCLS SRA