Peter J. Shepard

TL;DR: PAS-Seq analyses revealed a complex landscape of RNA polyadenylation in mammalian cells and the dynamic regulation of APA during stem cell differentiation and detected significant changes in the global APA profile that lead to lengthening of 3' untranslated regions (UTR) in many mRNAs during stem Cell differentiation.

TL;DR: Members of the family of serine/arginine (SR)-rich proteins are critical components of the machineries carrying out these essential processing events, highlighting their importance in maintaining efficient gene expression.

TL;DR: It is proposed that cryptic 3’SS selection is a result of SF3B1 mutations causing a shift in the sterically protected region downstream of the branch point, and this model provides both a mechanistic model consistent with published experimental data and affected targets that will guide further research into the oncogenic effects of SF 3B1 mutation.

TL;DR: Using structural and functional conservation, RNA structure elements within the human genome are identified that associate with alternative splice-site selection and demonstrate that RNA structure formation is an important mechanism regulating gene expression and disease.

TL;DR: It is concluded that TSA induces a specific expression signature that is consistent across widely different cell types, that this signature contains genes not previously associated with TSA responses, and that TempO-Seq provides the sensitive differential expression detection needed to define such compound-specific, cell-independent, changes in expression.