ERX149455
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
SAMEA1695357
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:Nucleosomes_ES
broker name
ArrayExpress
cell type
ES cell
common name
house mouse
sample name
E-MTAB-1302:Nucleosomes_ES

Sequenced DNA Library

library_name
KKZL-Liver_P_pool_1_2_3_4_5_6_7
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Mononucleosomal DNA was collected and pooled from both partial and full digestion of ES or EHP cells with micrococal nuclease.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
185617554
Reads aligned (%)
97.1
Duplicates removed (%)
71.1
Number of peaks
493 (qval < 1E-05)

mm9

Number of total reads
185617554
Reads aligned (%)
96.9
Duplicates removed (%)
71.2
Number of peaks
590 (qval < 1E-05)

Base call quality data from DBCLS SRA