Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryonic fibroblast
Cell type
NIH/3T3
Primary Tissue
Embryo
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
NIH/3T3 cells
cell type
Fibroblast
passages
15-18
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA: Trizol followed by depletion of ribosomal RNA using the ribominus V2 kit (Life technologies) and size selection using the mirVana separation kit (Life technologies), DNA: Phenol-Chloroform Libraries were prepared according to NEB instructions accompanying the following kits: ChIP/CHART-sequencing: NEBNext ChIP-seq library Prep Master MIX set, Short-RNA-sequencing:NEBnext small RNA library construction kit (NEB), RNA-sequencing: NEBNext Ultra directional RNA library kit (NEB)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
9553503
Reads aligned (%)
88.8
Duplicates removed (%)
2.3
Number of peaks
64 (qval < 1E-05)

mm9

Number of total reads
9553503
Reads aligned (%)
88.8
Duplicates removed (%)
2.3
Number of peaks
53 (qval < 1E-05)

Base call quality data from DBCLS SRA