Illumina HiSeq 4000 paired end sequencing; ChIP-seq for Meis 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
2020-01-06
ENA last update
2019-03-12
ENA-CHECKLIST
ERC000011
External Id
SAMEA5418167
INSDC center alias
UNIVERSITY OF MANCHESTER
INSDC center name
UNIVERSITY OF MANCHESTER
INSDC first public
2020-01-06T17:04:11Z
INSDC last update
2019-03-12T14:12:28Z
INSDC status
public
Submitter Id
E-MTAB-7767:Meis ChIP PBA rep3
age
11.5
broker name
ArrayExpress
common name
house mouse
developmental stage
embryo stage
genotype
WT
individual
pooled tissue
organism part
posterior branchial arches connected to OFT
sample name
E-MTAB-7767:Meis ChIP PBA rep3
sex
mixed
strain
CD1
Sequenced DNA Library
library_name
Meis ChIP PBA rep3_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. First 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. Diapure kit (Diagenode) ChIP-seq was performed as described in Donaldson et al., 2012, using 20ug of Meis antibody (Santa Cruz Biotechnology sc-10599X). 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 arches were used for BA1 - 'rep1', the remaining samples used approximately 50. Library preparation was performed using different kits. BA1 - 'rep1' used the TruSeq ChIP Sample Preparation kit (Illumina). BA1 - 'rep2' used the Rubicon ThruPlex kit (Takara Bio USA, Inc). PBA 'rep3' and 'rep4' used the Microplex Diagenode kit (Diagenode).