A murine allelic series of Ogt catalytic hypomorphic mutants uncovers the requirement of O-GlcNAc for embryonic development

This website shows the results of the analyses of RNA-Seq data for paper "A murine allelic series of Ogt catalytic hypomorphic mutants uncovers the requirement of O-GlcNAc for embryonic development" ([Formichetti et al. 2024](link to biorxiv to add])).

Source Rmd code is in github repository.

Ogt-T931A/del alleles - single blastocyst mRNA-Seq

• Filtering steps and clustering of the blastocysts' transcriptomes
• Analysis of differential gene expression in Ogt-T931del hemizygous vs WT male blastocysts
• Analysis of changes in retrotransposons' expression across preimplantation development using publicly available data (GSE66582 and GSE76505, only WT embryos)
• Analysis of retrotransposons' expression in the mutant and WT blastocysts' transcriptomes
• Dynamics of DEGs found in Ogt-T931del hemizygous male blastocysts across preimplantation development

Ogt-Y851A allele - single E12.5 placentae mRNA-Seq

• Analysis of i. sexually dymorphic placental gene expression and ii. differential gene expression in Ogt-Y851A homozygous vs heterozygous female placentae and in Ogt-Y851A hemizygous vs WT male placentae
• Gene set enrichment analysis of expression changes in Ogt-Y851A homozygous female and Ogt-Y851A hemizygous male placentae
• Analysis of the expression of markers for the different placental cell types in the placentae wih the four genotypes
• Analysis of retrotransposons' expression in the placentae wih the four genotypes

AID-Ogt allele - single blastocysts mRNA-Seq

• Clustering of the blastocysts' transcriptomes before and after batch correction using RUVSeq
• Analysis of differential gene expression without or with the removal of unwanted variation computed with RUVSeq

AID-Ogt allele - MEFs mRNA-Seq

• Analysis of differential gene expression in MEFs in a time course after auxin-induced AID-OGT depletion