Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H2A.X

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
H2AX.FC/FC
cell type
Immortalized Mouse Embryonic Fibroblast (MEF) cells in which both Mll2 alleles had been targeted by loxP (F/F cells)
treatment
24 hours exposure to tamoxifen
resulting cell type
MLL2 FC/FC MEF cells
chip antibody
anti-H2AX (Abcam, catalog# ab11175)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were cross-linked with 1% formaldehyde. Nuclei were extracted in low salt conditions and burst in high salt before shearing the DNA to reduce the size to ~400 bp and performing ChIP with the appropriate antibodies. DNA libraries were prepared according to Illumina's standard instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
40389753
Reads aligned (%)
94.1
Duplicates removed (%)
14.6
Number of peaks
539 (qval < 1E-05)

mm9

Number of total reads
40389753
Reads aligned (%)
93.8
Duplicates removed (%)
14.6
Number of peaks
596 (qval < 1E-05)

Base call quality data from DBCLS SRA