ERX149450
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
Embryo
Cell type
Hepatic progenitors
NA
NA

Attributes by original data submitter

Sample

ENA first public
2012-12-24
ENA last update
2018-03-08
External Id
SAMEA1695352
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:Smarca4_EHP
broker name
ArrayExpress
cell type
endoderm/hepatic progenitor cell
common name
house mouse
sample name
E-MTAB-1302:Smarca4_EHP

Sequenced DNA Library

library_name
PD-B-4
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
80930760
Reads aligned (%)
79.8
Duplicates removed (%)
46.7
Number of peaks
1150 (qval < 1E-05)

mm9

Number of total reads
80930760
Reads aligned (%)
79.4
Duplicates removed (%)
46.6
Number of peaks
1252 (qval < 1E-05)

Base call quality data from DBCLS SRA