4C-seq_PromoterViewpoint_dex_etoh_rep2
Protocols: 4C-seq was performed with 5 million cells per treatment, cells were grown in DMEM containing 5% fetal bovine serum. A549 cells were grown to approximately 90% confluence according to standard protocols in DMEM medium with 5% FBS. Cells were treated with either 100 nM dexamethasone or 0.1% ethanol. After 4 hours, cells were washed 2x with PBS and cultured in hormone-free medium for 24 hours, after which cells were treated again for 4 hours with either 100 nM dexamethasone or 0.1% ethanol. 4C template preparation was carried out as described in PMID: 22929766. Restriction digests were performed with the enzymes Csp6I (primary, Thermo Fisher Scientific) and DpnII (secondary, Thermo Fisher Scientific). 4C-seq library preparation was performed as described in PMID: 31351925 (except that the DNA was purified with 1.5× AMPure XP beads (Beckman Coulter) after the first PCR). The following primer pairs were used for the inverse PCR: ZBTB16 promoter-proximal VP (fwd: TACACGACGCTCTTCCGATCTAGCAGAGAGGAGTTGAGG, rev: ACTGGAGTTCAGACGTGTGCTCTTCCGATCTTAGTGAACCAGGTGCCAG), ZBTB16 intronic VP (fwd: TACACGACGCTCTTCCGATCTATGTGTGCGTTCATGTATGT, rev: ACTGGAGTTCAGACGTGTGCTCTTCCGATCTGAGGAAAGGTTAGGAAGTGG)
1st restriction digest
Csp6I
2nd restriction digest
DpnII
ENA first public
2021-05-12
ENA last update
2021-05-12
External Id
SAMEA7722613
INSDC center name
MPIMG
INSDC first public
2021-05-03T00:22:16Z
INSDC last update
2020-12-15T12:54:48Z
INSDC status
public
Submitter Id
E-MTAB-9915:4C-seq_PromoterViewpoint_dex_etoh_rep2
broker name
ArrayExpress
cell line
A549
common name
human
developmental stage
adult
disease
carcinoma
organism part
lung
sample name
E-MTAB-9915:4C-seq_PromoterViewpoint_dex_etoh_rep2
viewpoint
chr11:113929670-113930464 (hg19)