Allele-specific RNA-seq expression profiling of imprinted genes in mouse isogenic pluripotent states.

ABSTRACT:

Background

Genomic imprinting, resulting in parent-of-origin specific gene expression, plays a critical role in mammalian development. Here, we apply allele-specific RNA-seq on isogenic B6D2F1 mice to assay imprinted genes in tissues from early embryonic tissues between E3.5 and E7.25 and in pluripotent cell lines to evaluate maintenance of imprinted gene expression. For the cell lines, we include embryonic stem cells (ESCs) and epiblast stem cells (EpiSCs) derived from fertilized embryos and from embryos obtained after nuclear transfer (NT) or parthenogenetic activation (PGA).

Results

As homozygous genomic regions of PGA-derived cells are not compatible with allele-specific RNA-seq, we developed an RNA-seq-based genotyping strategy allowing identification of informative het

SUBMITTER: Dirks RAM 

PROVIDER: S-EPMC6376749 | biostudies-literature | 2019 Feb

REPOSITORIES: biostudies-literature