SRX796322
GSM1558592: H2AXS139ph Chip seq in MEF Hmga2 Ko; Mus musculus; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H2A.XS139ph

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 Fibroblast (MEF)
cells
Mouse Embryonic Fibroblast (MEF)
embryo stage
E15.5
passages
2_to_4
strain
C57BL/6
genotype/variation
Hmga2 Ko
chip antibody
H2AXS139ph (Millipore, cat: 05-636, lot 2019732)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated chromatin and Protein-DNA complexes were isolated with the antibody. Libraries were prepared according to Illumina's instructions accompanying the Ovation Ultra Low Kit

Sequencing Platform

instrument_model
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
32000000
Reads aligned (%)
98.7
Duplicates removed (%)
15.8
Number of peaks
315 (qval < 1E-05)

mm9

Number of total reads
32000000
Reads aligned (%)
98.5
Duplicates removed (%)
15.8
Number of peaks
265 (qval < 1E-05)

Base call quality data from DBCLS SRA