ERX149452
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
2012-12-24
ENA last update
2018-03-08
External Id
SAMEA1695363
INSDC center alias
Department of Genetics University of Pennsylvania
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:H2A.Z_ES
broker name
ArrayExpress
cell type
ES cell
common name
house mouse
sample name
E-MTAB-1302:H2A.Z_ES

Sequenced DNA Library

library_name
PZ-6
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
44098854
Reads aligned (%)
87.6
Duplicates removed (%)
14.5
Number of peaks
15198 (qval < 1E-05)

mm9

Number of total reads
44098854
Reads aligned (%)
87.5
Duplicates removed (%)
14.6
Number of peaks
15213 (qval < 1E-05)

Base call quality data from DBCLS SRA