organism: Mus musculus
description: Protocols: 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).
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2020-01-06T17:04:11Z
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2019-03-12T14:12:28Z
attributes.tag: External Id
attributes.value: SAMEA5418166
attributes.tag: INSDC center name
attributes.value: UNIVERSITY OF MANCHESTER
attributes.tag: INSDC first public
attributes.value: 2020-01-06T17:04:11Z
attributes.tag: INSDC last update
attributes.value: 2019-03-12T14:12:28Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-7767:Meis ChIP BA1 rep2
attributes.tag: age
attributes.value: 11.5
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: common name
attributes.value: house mouse
attributes.tag: developmental stage
attributes.value: embryo stage
attributes.tag: genotype
attributes.value: WT
attributes.tag: individual
attributes.value: pooled tissue
attributes.tag: organism part
attributes.value: second branchial arch
attributes.tag: sample name
attributes.value: E-MTAB-7767:Meis ChIP BA1 rep2
attributes.tag: scientific_name
attributes.value: Mus musculus
attributes.tag: sex
attributes.value: mixed
attributes.tag: strain
attributes.value: CD1