ERX149457
Foxa2 and H2A.Z Mediate Nucleosome Depletion during Embryonic Stem Cell Differentiation

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

ENA-FIRST-PUBLIC
2012-12-24T17:01:53Z
ENA-LAST-UPDATE
2018-03-08T15:57:29Z
External Id
SAMEA1695358
INSDC center name
Department of Genetics University of Pennsylvania
INSDC first public
2012-12-24T17:01:53Z
INSDC last update
2018-03-08T15:57:29Z
INSDC status
public
Submitter Id
E-MTAB-1302:Kat5_ES
broker name
ArrayExpress
cell type
ES cell
common name
house mouse
sample name
E-MTAB-1302:Kat5_ES
scientific_name
Mus musculus

Sequenced DNA Library

library_name
P-T-12
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After crosslinking, chromatin was sonicated and immunoprecipitated with antibodies against Foxa2, H2A.Z, H2A.X, Smarca4, Kat5 and Nap1l1.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
92183331
Reads aligned (%)
26.0
Duplicates removed (%)
69.1
Number of peaks
1154 (qval < 1E-05)

mm9

Number of total reads
92183331
Reads aligned (%)
25.9
Duplicates removed (%)
69.2
Number of peaks
1146 (qval < 1E-05)

Base call quality data from DBCLS SRA