Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

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
NIH3T3 cells
cell line
NIH3T3 (CRL-1658)
transfection
pEFm6-BRAF
passages
5-8
strain
NIH/Swiss

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Wild and mutation cells were fixed with 1.0% formaldehyde at room temperature for 15 min, after which glycine was added to the medium. The cells were then lysed and the rabbit polyclonal antibodies against H3K27me3 (#9733, CST) was used for the ChIP assay using the Pierce™ Magnetic ChIP Kit (Thermo, Inc., MA, USA) according to the instructions of manufacturer. Immunoprecipitated DNA (20 ng) was subjected to size selection of fragments around 200-bp in length. Sequencing libraries were consequently constructed by adaptor ligation and PCR. Sequencing was carried out with an Illumina HiSeq2500 system according to the manufacturer's protocol.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
32558013
Reads aligned (%)
95.0
Duplicates removed (%)
8.9
Number of peaks
228 (qval < 1E-05)

mm9

Number of total reads
32558013
Reads aligned (%)
94.8
Duplicates removed (%)
8.8
Number of peaks
247 (qval < 1E-05)

Base call quality data from DBCLS SRA