ERX714401
Illumina Genome Analyzer IIx sequencing; In vivo ChIP-seq analysis of Foxa1 and Foxa2 binding sites in midbrain dopaminergic progenitors and neurons

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

Cell type

Cell type Class
Embryo
Cell type
Embryonic brains
NA
NA

Attributes by original data submitter

Sample

ENA-CHECKLIST
ERC000011
ENA-FIRST-PUBLIC
2015-03-02T17:03:43Z
ENA-LAST-UPDATE
2018-03-08T23:26:14Z
External Id
SAMEA3276644
INSDC center name
NIMR
INSDC first public
2015-03-02T17:03:43Z
INSDC last update
2018-03-08T23:26:14Z
INSDC status
public
Submitter Id
E-MTAB-3332:Foxa1_ChIP_A
broker name
ArrayExpress
common name
house mouse
developmental stage
embryonic day 12.5
organism part
ventral midbrain
sample name
E-MTAB-3332:Foxa1_ChIP_A
scientific_name
Mus musculus

Sequenced DNA Library

library_name
Foxa1_ChIP_A
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
E12.5 mouse embryos manual dissection of ventral midbrain Chromatin Immunoprecipitation using Foxa1 antibody ChIP-Seq DNA Sample Prep Kit

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
38953015
Reads aligned (%)
90.2
Duplicates removed (%)
50.3
Number of peaks
3932 (qval < 1E-05)

mm9

Number of total reads
38953015
Reads aligned (%)
90.0
Duplicates removed (%)
50.4
Number of peaks
3740 (qval < 1E-05)

Base call quality data from DBCLS SRA