Abstract
Imprinted Genes … and the Number Is?
Highlights
The experimental strategy that Gregg et al and Babak and colleagues [4,5] used to discover imprinted genes was to perform quantitative, whole-transcriptome sequencing of samples from reciprocal hybrids and to identify single nucleotide polymorphisms (SNPs) at which one parental allele is preferentially expressed
Comparison of reciprocal cross samples should rule out genetic effects and mitigate against some experimental noise
The approach is conceptually simple, but it requires robust statistical methods to account for false positives and it is probably fair to say that this remains an area of methodological development
Summary
The experimental strategy that Gregg et al and Babak and colleagues [4,5] used to discover imprinted genes was to perform quantitative, whole-transcriptome sequencing (mRNA-seq) of samples from reciprocal hybrids (fetal or adult brain tissue from F1 hybrid mice, Figure 1) and to identify single nucleotide polymorphisms (SNPs) at which one parental allele is preferentially expressed. By reanalysing mRNA-seq datasets from embryonic day 15 (e15) brain published by Gregg et al [4] and e17.5 brain (their own, [5]), and using the same statistical approach, DeVeale et al detect similar numbers of known imprinted genes.
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