Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryonic fibroblast
Cell type
MEF
Tissue
Embryonic Fibroblast
Lineage
primaryCells
Description
Mouse Embryonic Fibroblast

Attributes by original data submitter

Sample

source_name
Primary fibroblasts
strain
C57BL/6J
age
E13.5-E14.5
genotype
wild-type
treatment
6hr stimulation with 15% serum media
passage
3
chip antibody
none
cell line
Primary fibroblasts
serum stimulation
6hr

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Growth media was removed and MEFs were crosslinked in 1% formaldehyde for 10 minutes at room temperature before quenching with glycine at a final concentration of 0.125M. Sonicated chromatin from isolated nuclei were used as input to ChIP. 10 ng of each ChIP sample was used to prepare ChIP-Seq libraries with Beijing Genomics Institute (BGI)'s standard library preparation protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
24134943
Reads aligned (%)
98.9
Duplicates removed (%)
11.8
Number of peaks
445 (qval < 1E-05)

mm9

Number of total reads
24134943
Reads aligned (%)
98.7
Duplicates removed (%)
11.8
Number of peaks
481 (qval < 1E-05)

Base call quality data from DBCLS SRA