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
mouse embryonic fibroblasts
cell type
conditional Jmjd2c knockout MEFs
treatment
-
chip antibody
IgG
strain
C57BL/6

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation (ChIP) was performed using formaldehyde crosslinked chromatin sonicated to an average size of 200-600 bp and the indicated antibodies. 5-10 ng of DNA was processed using NEBNext and Illumina ChIP seq kits according to the manufacturer's instructions. In brief, DNA was adaptor-ligated, subjected to gel size selection, amplified and analyzed by Solexa/Illumina high-throughput sequencing.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

mm10

Number of total reads
26382195
Reads aligned (%)
60.9
Duplicates removed (%)
12.8
Number of peaks
111837 (qval < 1E-05)

mm9

Number of total reads
26382195
Reads aligned (%)
60.8
Duplicates removed (%)
13.0
Number of peaks
111861 (qval < 1E-05)

Base call quality data from DBCLS SRA