title: Standard NextSeq 500 paired-end Sequencing; Spike-in CUT&Tag for (co)factors and histone modifications upon optogenetic depletion of the cofactor Chip or in zelda mutant in Drosophila melanogaster embryos
design: Spike-in CUT&Tag for (co)factors and histone modifications upon optogenetic depletion of the cofactor Chip or in zelda mutant in Drosophila melanogaster embryos
library_construction_protocol: All fly lines were maintained in a standard cornmeal-agar medium and grown at 25°C. ; The collections were aged at 25°C to the corresponding time window (2-3h, 2-4 h, 6-7h, 6-8 h, 10-12 h), and exposed to blue light for the indicated durations (as stated in the results).  Embryos were fixed in 1.8% formaldehyde for 15 minutes, with the exception of ChIP-seq and CUT&Tag using the rabbit anti-Chip antibody and guinea pig anti-CBP antibody, where 3% formaldehyde for 30 min was used. ; Extraction was performed as described in Bonn et al. 2012 (doi: 10.1038/ng.1064). ; Cut and Tag protocol as published in Cavalheiro et al. 2023 (Sci Adv. 2023 Feb 3;9(5):eade1085).