Illumina HiSeq 2500 paired end sequencing; ChIP-seq for Gata6 and histone H3K27Ac on mouse branchial arches at E11.5.
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
No description
Antigen
NA
Cell type
Cell type Class
Embryo
Cell type
Branchial arch
NA
NA
Attributes by original data submitter
Sample
ENA first public
2017-09-25
ENA last update
2017-01-16
ENA-CHECKLIST
ERC000011
External Id
SAMEA50556418
INSDC center alias
UOM
INSDC center name
University of Manchester
INSDC first public
2017-09-25T17:03:16Z
INSDC last update
2017-01-16T15:53:43Z
INSDC status
public
Submitter Id
E-MTAB-5407:Gata6_PBA_ChIP_rep2
broker name
ArrayExpress
common name
house mouse
developmental stage
E11.5
organism part
posterior branchial arches connected to OFT
sample name
E-MTAB-5407:Gata6_PBA_ChIP_rep2
strain
CD1
Sequenced DNA Library
library_name
Gata6_PBA_ChIP_rep2_p
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The preparation of the material was as described in Kutejova et al., 2008. Second branchial arches, and posterior branchial arches connected to OFT were dissected (the whole tissue), crosslinked and frozen in order to pool enough for ChIP. Kutejova E, Engist B, Self M, Oliver G, Kirilenko P, Bobola N. Six2 functions redundantly immediately downstream of Hoxa2. Development. 2008. 135(8):1463-70. PMID: 18321982. MinElute PCR purification kit (Qiagen) ChIP-seq was performed as described in Donaldson et al., 2012, using 20 ug of Gata6 antibody (Cell Signaling, D61E4 XP) and 20 ug of H3K27Ac antibody (Abcam, ab4729). Donaldson I, Amin S, Hensman J, Kutejova E, Rattray M, Lawrence N, Hayes A, Ward C and Bobola N. Genome-wide occupancy links Hoxa2 to Wnt-beta-catenin signaling in mouse embryonic development. Nucleic Acids Res. 2012. 40(9):3990-4001. 70 to 100 arches were used for each sample. Library preparation was performed using the TruSeq ChIP Sample Preparation kit (Illumina).