GSE201981
Analysis of the Role of NuMA (TDIF) in DNA repair Through Next Generation Sequencing Techniques [OGAP-seq SH-SY5Y]
Purpose: To assess the role of NuMA (TDIF) in DNA repair  Methods: OGAP-seq was carried out in in each pairwise combination of untreated/hydrogen peroxide treated and no doxycyclin (NuMA (TDIF) WT)/doxycyclin treated (NuMA (TDIF) KD) SH-SY5Y cells in duplicate. The data was mapped using bwa mem and subsequently used to generate bigwigs showing fold-change relative to inputs using MACS2 and various meta-feature profiles using the CGAT suite of bioinformatics tools  Results: The data revealed elevated OGAP-seq signal in promoter and enhancer regions upon NuMA (TDIF) KD  Conclusions: Our study indicates that NuMA (TDIF) plays a role in the protection from and response to oxidative damage. This protective effect appears to be particularly strong at promoter and enhancer regions. Overall design: Assessment of oxidative damage within the genome through OGAP-seq in SH-SY5Y cells under each pairwise combination of untreated/hydrogen peroxide treated and no doxycyclin (NuMA (TDIF) WT)/doxycyclin treated (NuMA (TDIF) KD) SH-SY5Y cells in duplicate MH = Untreated/H2O2-, R90 = H2O2 treated 90 minute recovery, WT = Wild type with respect to NuMA (TDIF), KD = NuMA (TDIF) Knockdown, IN = Input, IP = OGAP-seq